Back to Long Tests report for BioC 3.19

This page was generated on 2024-10-12 23:55 -0400 (Sat, 12 Oct 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4763
palomino7Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4500
merida1macOS 12.7.5 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4529
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 10/33HostnameOS / ArchCHECK
biodbLipidmaps 1.10.0  (landing page)
Pierrick Roger
Snapshot Date: 2024-10-12 09:55 -0400 (Sat, 12 Oct 2024)
git_url: https://git.bioconductor.org/packages/biodbLipidmaps
git_branch: RELEASE_3_19
git_last_commit: 323ed25
git_last_commit_date: 2024-04-30 11:39:02 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  ERROR  
palomino7Windows Server 2022 Datacenter / x64  OK  
merida1macOS 12.7.5 Monterey / x86_64  OK  

CHECK results for biodbLipidmaps on merida1

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

raw results


Summary

Package: biodbLipidmaps
Version: 1.10.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbLipidmaps_1.10.0.tar.gz
StartedAt: 2024-10-12 16:01:31 -0400 (Sat, 12 Oct 2024)
EndedAt: 2024-10-12 16:04:45 -0400 (Sat, 12 Oct 2024)
EllapsedTime: 193.9 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbLipidmaps.Rcheck
Warnings: 0

Tests output

biodbLipidmaps.Rcheck/tests/testthat.Rout


R version 4.4.1 (2024-06-14) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbLipidmaps)
Warning message:
In fun(libname, pkgname) :
  Package 'biodbLipidmaps' is deprecated and will be removed from
  Bioconductor version 3.20
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbLipidmaps")
biodb.INFO [2024-10-12 16:02:28.849][biodb::testContext]
biodb.INFO [2024-10-12 16:02:28.853][biodb::testContext] ********************************************************************************
biodb.INFO [2024-10-12 16:02:28.855][biodb::testContext] Test context - Generic long tests
biodb.INFO [2024-10-12 16:02:28.856][biodb::testContext] ********************************************************************************
biodb.INFO [2024-10-12 16:02:28.858][biodb::testContext]
biodb.INFO [2024-10-12 16:02:28.866][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-10-12 16:02:28.869][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-10-12 16:02:28.878][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-10-12 16:02:28.880][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-10-12 16:02:28.882][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-10-12 16:02:28.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:28.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:28.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:28.888][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-10-12 16:02:28.921][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-10-12 16:02:28.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:28.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:28.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:28.939][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-10-12 16:02:28.940][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-10-12 16:02:28.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:28.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:28.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:28.945][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-10-12 16:02:28.946][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-10-12 16:02:28.947][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-10-12 16:02:28.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:28.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:28.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:28.952][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-10-12 16:02:28.953][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-10-12 16:02:28.955][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-10-12 16:02:28.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:28.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:28.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:28.959][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-10-12 16:02:28.961][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-10-12 16:02:28.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:28.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:28.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:28.965][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-10-12 16:02:28.967][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-10-12 16:02:28.968][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-10-12 16:02:28.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:28.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:28.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:28.973][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-10-12 16:02:28.974][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-10-12 16:02:28.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:28.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:28.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:28.979][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-10-12 16:02:28.980][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-10-12 16:02:28.981][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-10-12 16:02:28.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:28.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:28.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:28.986][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-10-12 16:02:28.987][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-10-12 16:02:28.988][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-10-12 16:02:28.990][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-10-12 16:02:28.991][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-10-12 16:02:28.992][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-10-12 16:02:28.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:28.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:28.996][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.DEBUG[2024-10-12 16:02:28.997][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-10-12 16:02:28.998][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-10-12 16:02:28.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.003][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-10-12 16:02:29.004][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-10-12 16:02:29.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.009][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-10-12 16:02:29.010][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-10-12 16:02:29.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.015][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-10-12 16:02:29.016][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-10-12 16:02:29.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.021][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-10-12 16:02:29.022][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-10-12 16:02:29.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.027][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-10-12 16:02:29.028][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-10-12 16:02:29.039][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-10-12 16:02:29.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.044][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-10-12 16:02:29.046][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-10-12 16:02:29.047][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-10-12 16:02:29.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.055][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-10-12 16:02:29.102][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-10-12 16:02:29.125][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-10-12 16:02:29.126][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.128][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-10-12 16:02:29.129][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.130][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.132][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-10-12 16:02:29.133][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.134][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-10-12 16:02:29.136][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-10-12 16:02:29.137][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.138][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-10-12 16:02:29.140][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-10-12 16:02:29.141][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.142][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.143][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-10-12 16:02:29.143][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-10-12 16:02:29.143][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-10-12 16:02:29.143][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-10-12 16:02:29.143][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-10-12 16:02:29.145][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-10-12 16:02:29.146][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:02:29.147][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:02:29.149][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-10-12 16:02:29.150][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:02:29.152][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:02:29.154][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.155][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.157][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-10-12 16:02:29.158][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-10-12 16:02:29.159][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-10-12 16:02:29.161][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.162][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-10-12 16:02:29.165][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-10-12 16:02:29.166][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-10-12 16:02:29.167][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.169][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-10-12 16:02:29.170][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.171][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.172][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-10-12 16:02:29.174][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.175][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-10-12 16:02:29.176][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-10-12 16:02:29.178][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.179][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-10-12 16:02:29.180][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-10-12 16:02:29.181][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.183][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.184][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-10-12 16:02:29.184][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-10-12 16:02:29.184][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-10-12 16:02:29.184][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-10-12 16:02:29.184][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-10-12 16:02:29.185][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-10-12 16:02:29.187][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:02:29.188][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:02:29.190][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-10-12 16:02:29.191][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:02:29.192][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:02:29.199][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.200][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.201][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-10-12 16:02:29.202][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-10-12 16:02:29.204][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-10-12 16:02:29.205][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.206][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-10-12 16:02:29.208][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.210][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-10-12 16:02:29.211][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.212][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-10-12 16:02:29.213][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.215][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.216][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-10-12 16:02:29.217][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.218][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-10-12 16:02:29.220][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-10-12 16:02:29.221][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-10-12 16:02:29.223][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-10-12 16:02:29.224][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-10-12 16:02:29.225][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.227][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.228][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.229][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-10-12 16:02:29.230][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:02:29.231][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:02:29.233][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-10-12 16:02:29.234][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:02:29.235][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:02:29.236][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.237][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.239][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-10-12 16:02:29.240][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-10-12 16:02:29.241][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-10-12 16:02:29.242][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.244][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-10-12 16:02:29.247][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.248][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-10-12 16:02:29.250][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.251][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-10-12 16:02:29.252][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.253][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.255][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-10-12 16:02:29.256][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.257][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-10-12 16:02:29.258][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-10-12 16:02:29.260][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-10-12 16:02:29.261][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-10-12 16:02:29.262][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-10-12 16:02:29.263][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.265][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.266][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.267][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-10-12 16:02:29.268][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:02:29.270][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:02:29.271][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-10-12 16:02:29.272][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:02:29.273][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:02:29.274][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.276][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.277][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-10-12 16:02:29.278][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-10-12 16:02:29.279][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-10-12 16:02:29.281][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.285][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-10-12 16:02:29.286][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.288][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[2024-10-12 16:02:29.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.322][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[2024-10-12 16:02:29.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.328][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[2024-10-12 16:02:29.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.339][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[2024-10-12 16:02:29.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.345][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[2024-10-12 16:02:29.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.373][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[2024-10-12 16:02:29.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.379][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[2024-10-12 16:02:29.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.384][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[2024-10-12 16:02:29.386][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-10-12 16:02:29.391][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-10-12 16:02:29.393][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-10-12 16:02:29.394][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-10-12 16:02:29.396][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-10-12 16:02:29.398][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-10-12 16:02:29.400][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-10-12 16:02:29.401][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-10-12 16:02:29.403][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-10-12 16:02:29.405][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-10-12 16:02:29.407][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-10-12 16:02:29.409][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-10-12 16:02:29.410][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-10-12 16:02:29.412][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-10-12 16:02:29.414][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-10-12 16:02:29.415][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-10-12 16:02:29.417][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-10-12 16:02:29.419][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-10-12 16:02:29.421][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-10-12 16:02:29.422][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-10-12 16:02:29.424][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-10-12 16:02:29.426][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-10-12 16:02:29.428][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-10-12 16:02:29.429][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-10-12 16:02:29.431][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-10-12 16:02:29.433][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-10-12 16:02:29.435][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-10-12 16:02:29.437][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-10-12 16:02:29.439][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-10-12 16:02:29.445][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-10-12 16:02:29.447][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-10-12 16:02:29.449][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-10-12 16:02:29.450][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-10-12 16:02:29.452][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-10-12 16:02:29.454][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-10-12 16:02:29.455][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-10-12 16:02:29.457][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-10-12 16:02:29.459][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-10-12 16:02:29.460][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-10-12 16:02:29.462][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-10-12 16:02:29.464][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-10-12 16:02:29.466][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-10-12 16:02:29.467][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-10-12 16:02:29.469][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-10-12 16:02:29.471][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-10-12 16:02:29.472][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-10-12 16:02:29.474][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-10-12 16:02:29.476][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-10-12 16:02:29.478][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-10-12 16:02:29.479][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-10-12 16:02:29.481][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-10-12 16:02:29.483][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-10-12 16:02:29.484][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-10-12 16:02:29.486][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-10-12 16:02:29.488][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-10-12 16:02:29.489][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-10-12 16:02:29.491][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-10-12 16:02:29.493][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-10-12 16:02:29.495][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-10-12 16:02:29.496][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-10-12 16:02:29.498][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-10-12 16:02:29.500][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-10-12 16:02:29.502][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-10-12 16:02:29.503][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-10-12 16:02:29.505][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-10-12 16:02:29.507][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-10-12 16:02:29.508][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-10-12 16:02:29.510][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-10-12 16:02:29.512][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-10-12 16:02:29.514][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-10-12 16:02:29.515][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-10-12 16:02:29.517][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-10-12 16:02:29.519][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-10-12 16:02:29.521][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-10-12 16:02:29.522][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-10-12 16:02:29.525][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-10-12 16:02:29.527][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-10-12 16:02:29.529][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-10-12 16:02:29.531][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-10-12 16:02:29.532][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-10-12 16:02:29.534][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-10-12 16:02:29.536][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-10-12 16:02:29.538][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-10-12 16:02:29.546][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-10-12 16:02:29.548][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-10-12 16:02:29.552][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-10-12 16:02:29.553][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.555][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.624][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[2024-10-12 16:02:29.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.655][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[2024-10-12 16:02:29.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.670][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[2024-10-12 16:02:29.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:02:29.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:29.700][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.19-bioc-longtests/meat/biodbLipidmaps.Rcheck/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2024-10-12 16:02:29.713][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2024-10-12 16:02:29.716][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-10-12 16:02:29.717][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.718][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.720][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-10-12 16:02:29.721][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.722][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.723][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.725][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.726][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-10-12 16:02:29.727][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-10-12 16:02:29.728][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.729][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2024-10-12 16:02:29.731][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-10-12 16:02:29.732][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2024-10-12 16:02:29.732][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2024-10-12 16:02:29.732][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2024-10-12 16:02:29.732][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2024-10-12 16:02:29.732][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2024-10-12 16:02:29.732][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2024-10-12 16:02:29.732][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2024-10-12 16:02:29.732][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2024-10-12 16:02:29.732][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2024-10-12 16:02:29.733][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-10-12 16:02:29.734][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-10-12 16:02:29.734][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-10-12 16:02:29.736][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-10-12 16:02:29.737][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:02:29.738][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:02:29.739][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-10-12 16:02:29.740][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:02:29.741][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:02:29.743][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-10-12 16:02:29.744][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2024-10-12 16:02:29.744][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2024-10-12 16:02:29.745][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-10-12 16:02:29.746][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-10-12 16:02:29.747][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-10-12 16:02:29.749][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:02:29.756][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2024-10-12 16:02:29.758][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-10-12 16:02:29.784][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2024-10-12 16:02:29.785][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2024-10-12 16:02:29.790][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2024-10-12 16:02:29.795][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2024-10-12 16:02:29.800][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2024-10-12 16:02:29.801][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2024-10-12 16:02:29.803][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2024-10-12 16:02:29.804][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2024-10-12 16:02:29.816][biodb::testThat]
biodb.INFO [2024-10-12 16:02:29.817][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-10-12 16:02:29.818][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:02:29.819][biodb::testThat]
biodb.TRACE[2024-10-12 16:02:29.824][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.19-bioc-longtests/meat/biodbLipidmaps.Rcheck/biodbLipidmaps/testref/entry-lipidmaps.structure-LMFA00000001-content.tsv".
biodb.DEBUG[2024-10-12 16:02:29.826][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2024-10-12 16:02:29.830][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2024-10-12 16:02:29.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:29.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:29.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:29.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:29.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:29.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:29.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:02:29.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:29.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:29.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:29.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:29.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:29.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:29.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:29.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:29.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:29.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:29.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:29.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:29.907][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:29.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:29.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:29.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:29.912][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:29.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:29.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:29.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:29.917][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:29.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:29.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:29.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:29.965][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:29.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:29.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:29.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:29.971][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:29.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:29.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:29.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:29.976][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:29.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:29.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:29.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:29.981][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:02:29.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:29.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:29.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:29.986][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:02:29.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:29.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:29.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:29.992][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:29.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:29.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:29.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:29.997][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:29.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:29.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.002][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.007][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.013][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:02:30.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.018][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2024-10-12 16:02:30.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.023][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.028][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.033][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:02:30.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.060][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.065][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.151][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.156][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.161][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.166][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.176][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:02:30.212][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA00000001.
biodb.TRACE[2024-10-12 16:02:30.215][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:02:30.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:02:30.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.220][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:02:30.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:02:30.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.225][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-10-12 16:02:30.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-10-12 16:02:30.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.230][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-10-12 16:02:30.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-10-12 16:02:30.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.275][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.318][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.323][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.328][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.362][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.363][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.365][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.383][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.388][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.393][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.398][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.399][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.402][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.403][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.418][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.423][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.428][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.434][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.435][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.437][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.439][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.454][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:30.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:30.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.460][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:30.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:30.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.465][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:30.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:30.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.470][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:30.471][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:30.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.473][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.475][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:30.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:30.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:30.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:30.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:30.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:30.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:30.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:30.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.504][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:30.505][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:30.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.507][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:30.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:30.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.523][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.528][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.533][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.538][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.539][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.542][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.547][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.562][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.563][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.565][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.571][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.573][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.575][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.581][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:30.582][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:30.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.585][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.591][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:30.592][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:30.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.594][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.600][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.602][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.604][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.610][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.611][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.613][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.614][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.637][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.19-bioc-longtests/meat/biodbLipidmaps.Rcheck/biodbLipidmaps/testref/entry-lipidmaps.structure-LMFA00000002-content.tsv".
biodb.DEBUG[2024-10-12 16:02:30.686][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2024-10-12 16:02:30.688][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2024-10-12 16:02:30.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:30.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:30.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:30.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:30.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:30.700][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:30.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:02:30.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:30.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:30.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:30.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:30.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.728][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:30.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:30.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.737][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:30.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:30.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.742][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.747][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:30.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.752][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.757][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:30.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.763][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:02:30.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:30.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.767][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:02:30.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:30.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.772][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:30.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:30.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.777][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:30.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:30.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.782][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.787][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.792][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:02:30.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.797][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2024-10-12 16:02:30.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.802][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.807][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:30.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.812][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:02:30.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:30.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.817][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.822][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.832][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:02:30.865][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA00000002.
biodb.TRACE[2024-10-12 16:02:30.892][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:02:30.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:02:30.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.897][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:02:30.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:02:30.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.902][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-10-12 16:02:30.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-10-12 16:02:30.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.907][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-10-12 16:02:30.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-10-12 16:02:30.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.926][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:30.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:30.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.967][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.972][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:30.977][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:30.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:30.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.017][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.019][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.020][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.021][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.041][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.046][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.051][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.052][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.055][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.056][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.071][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.076][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.081][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.086][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.087][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.089][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.090][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.105][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:31.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:31.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.114][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:31.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:31.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.120][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:31.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:31.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.124][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:31.126][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:31.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.128][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.129][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:31.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:31.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.160][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.161][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.163][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.195][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.197][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.199][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.217][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.222][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.227][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.232][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.233][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.235][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.237][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.252][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.253][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.256][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.262][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.263][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.266][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.272][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.274][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.276][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.283][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:31.284][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:31.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.288][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.296][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.298][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.300][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.306][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.308][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.310][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.317][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.322][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.325][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.332][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.19-bioc-longtests/meat/biodbLipidmaps.Rcheck/biodbLipidmaps/testref/entry-lipidmaps.structure-LMFA08040013-content.tsv".
biodb.DEBUG[2024-10-12 16:02:31.333][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2024-10-12 16:02:31.335][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2024-10-12 16:02:31.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:31.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:31.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:31.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:31.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:31.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:31.348][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.TRACE[2024-10-12 16:02:31.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.374][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:31.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:31.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.379][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:31.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:31.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.384][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:31.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:31.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.389][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:31.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:31.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.395][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.400][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.405][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.410][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.415][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:02:31.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.420][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:02:31.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.425][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:31.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:31.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.430][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:31.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:31.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.445][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:02:31.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.450][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2024-10-12 16:02:31.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.455][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.460][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.466][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:02:31.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.471][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.476][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.481][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.486][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.491][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.496][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:31.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:31.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.501][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:31.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:31.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.511][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:31.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:31.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:02:31.549][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA08040013.
biodb.TRACE[2024-10-12 16:02:31.552][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:02:31.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:02:31.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.557][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:02:31.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:02:31.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.562][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-10-12 16:02:31.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-10-12 16:02:31.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.567][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-10-12 16:02:31.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-10-12 16:02:31.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.583][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:31.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:31.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.625][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:31.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:31.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.630][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:31.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:31.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.635][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:31.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:31.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.663][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.664][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.667][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.683][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.688][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.693][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.698][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.699][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.702][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.703][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:31.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:31.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.722][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.727][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.732][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.737][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.738][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.741][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.742][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.757][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:31.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:31.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.762][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:31.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:31.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.767][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:31.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:31.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.772][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:31.773][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:31.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.776][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.777][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:31.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:31.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.792][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:31.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:31.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.797][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:31.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:31.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.802][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:31.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:31.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.807][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:31.808][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:31.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.811][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.812][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:31.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:31.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.841][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.843][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.845][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:31.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.861][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:31.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:31.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.866][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:31.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:31.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.871][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:31.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:31.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.876][ef$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:31.878][ef$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:31.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.880][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.881][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:31.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:31.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.896][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.901][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.906][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.916][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.917][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.919][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.921][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:31.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.950][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.954][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.969][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:31.971][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:31.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.973][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.980][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.981][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:31.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.983][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:31.990][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.991][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:31.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:31.994][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.000][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:32.001][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:32.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.004][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.010][ef$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:32.011][ef$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:32.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.014][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.020][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:32.021][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:32.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.024][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.030][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:32.031][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:32.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.033][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.039][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.041][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.043][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.049][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:32.050][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:32.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.053][ef$get] fields variable is a list.
biodb.INFO [2024-10-12 16:02:32.063][biodb::testThat]
biodb.INFO [2024-10-12 16:02:32.064][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-10-12 16:02:32.066][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:02:32.067][biodb::testThat]
biodb.DEBUG[2024-10-12 16:02:32.070][private$loadEntries] Creating entries from ids [3]: "LMFA00000001, LMFA00000002, LMFA08040013".
biodb.DEBUG[2024-10-12 16:02:32.077][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 3 id(s)...
biodb.TRACE[2024-10-12 16:02:32.081][cch$loadFileContent] Trying to load 3 files from cache: [3]: "LMFA00000001, LMFA00000002, LMFA08040013".
biodb.TRACE[2024-10-12 16:02:32.084][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2024-10-12 16:02:32.087][loadFileContents] Loaded 3 files from cache: [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000001.tsv, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000002.tsv, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA08040013.tsv".
biodb.DEBUG[2024-10-12 16:02:32.088][conn$getEntryContent] 3 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2024-10-12 16:02:32.090][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 3 content(s).
biodb.DEBUG[2024-10-12 16:02:32.091][self$createEntryFromContent] Parsing 3 LIPID MAPS Structure entries.
biodb.DEBUG[2024-10-12 16:02:32.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:32.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:32.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:32.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:32.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:32.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:32.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:02:32.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:32.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:32.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:32.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:32.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.136][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:32.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:32.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.141][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:32.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:32.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.146][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:32.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:32.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.151][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:32.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:32.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.156][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:32.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:32.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.161][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:32.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:32.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.166][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:02:32.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:32.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.171][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:02:32.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:32.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.177][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:32.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:32.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.182][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:32.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:32.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.187][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.192][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.197][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:02:32.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.202][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2024-10-12 16:02:32.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.212][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.217][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:02:32.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.227][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.232][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.237][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.242][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.247][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.252][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.262][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:02:32.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:32.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:32.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:32.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:32.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:32.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:32.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:02:32.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:32.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:32.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:32.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:32.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.325][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:32.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:32.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.330][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:32.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:32.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.335][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:32.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:32.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.340][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:32.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:32.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.345][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:32.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:32.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.350][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:32.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:32.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.355][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:02:32.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:32.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.361][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:02:32.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:32.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.366][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:32.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:32.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.371][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:32.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:32.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.376][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.381][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.386][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:02:32.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.391][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2024-10-12 16:02:32.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.396][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.401][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.406][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:02:32.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.412][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.417][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.427][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:02:32.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:32.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:32.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:32.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:32.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:32.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:32.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:02:32.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:32.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:32.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:32.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:32.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.487][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:32.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:32.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.492][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:32.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:32.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.501][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:32.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:32.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.506][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:32.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:32.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.511][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:32.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:32.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.516][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:32.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:32.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.521][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:32.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:32.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.526][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:32.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:32.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.531][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:02:32.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:32.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.536][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:02:32.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:32.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.541][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:32.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:32.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.546][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:32.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:32.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.551][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.556][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.561][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:02:32.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.566][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2024-10-12 16:02:32.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.576][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.581][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:02:32.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.587][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.592][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.597][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.602][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.607][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.612][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.617][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.627][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:32.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:32.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:32.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:02:32.696][self$createEntryFromContent] Accession numbers: LMFA00000001, LMFA00000002, LMFA08040013.
biodb.TRACE[2024-10-12 16:02:32.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-10-12 16:02:32.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-10-12 16:02:32.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-10-12 16:02:32.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-10-12 16:02:32.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-10-12 16:02:32.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-10-12 16:02:32.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-10-12 16:02:32.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-10-12 16:02:32.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-10-12 16:02:32.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-10-12 16:02:32.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-10-12 16:02:32.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-10-12 16:02:32.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-10-12 16:02:32.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-10-12 16:02:32.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-10-12 16:02:32.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-10-12 16:02:32.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-10-12 16:02:32.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-10-12 16:02:32.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-10-12 16:02:32.761][biodb::testThat]
biodb.INFO [2024-10-12 16:02:32.762][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-10-12 16:02:32.763][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:02:32.765][biodb::testThat]
biodb.TRACE[2024-10-12 16:02:32.768][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.769][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.772][ef$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:02:32.773][function(conn, opt)] Testing searchForEntries() with entry "LMFA00000001" and field "name".
biodb.TRACE[2024-10-12 16:02:32.808][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.814][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.818][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:02:32.827][function(conn, opt)] With value "2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2024-10-12 16:02:32.833][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[2024-10-12 16:02:32.862][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:02:32.888][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2024-10-12 16:02:32.890][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:02:32.892][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.DEBUG[2024-10-12 16:02:32.894][function(conn, opt)] With found IDs [1]: "LMFA00000001".
biodb.TRACE[2024-10-12 16:02:32.910][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:32.912][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:32.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.914][ef$get] fields variable is a list.
biodb.INFO [2024-10-12 16:02:32.920][biodb::testThat]
biodb.INFO [2024-10-12 16:02:32.921][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-10-12 16:02:32.922][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:02:32.924][biodb::testThat]
biodb.TRACE[2024-10-12 16:02:32.956][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.961][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:32.966][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:32.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:32.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:32.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:02:33.117][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[2024-10-12 16:02:33.121][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:02:33.123][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2024-10-12 16:02:33.125][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:02:33.126][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.INFO [2024-10-12 16:02:33.146][biodb::testThat]
biodb.INFO [2024-10-12 16:02:33.148][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-10-12 16:02:33.149][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:02:33.150][biodb::testThat]
biodb.TRACE[2024-10-12 16:02:33.162][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:02:33.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:02:33.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:33.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:33.167][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:02:33.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:02:33.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:33.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:33.172][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-10-12 16:02:33.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-10-12 16:02:33.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:33.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:33.177][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-10-12 16:02:33.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-10-12 16:02:33.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:33.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:33.231][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:02:33.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:02:33.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:33.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:33.236][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:02:33.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:02:33.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:33.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:33.240][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-10-12 16:02:33.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-10-12 16:02:33.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:33.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:33.245][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-10-12 16:02:33.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-10-12 16:02:33.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:33.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-10-12 16:02:33.276][biodb::testThat]
biodb.INFO [2024-10-12 16:02:33.277][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-10-12 16:02:33.279][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:02:33.280][biodb::testThat]
biodb.INFO [2024-10-12 16:02:33.291][biodb::testThat]
biodb.INFO [2024-10-12 16:02:33.293][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-10-12 16:02:33.294][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:02:33.295][biodb::testThat]
biodb.INFO [2024-10-12 16:02:33.305][biodb::testThat]
biodb.INFO [2024-10-12 16:02:33.307][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-10-12 16:02:33.308][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:02:33.309][biodb::testThat]
biodb.DEBUG[2024-10-12 16:02:33.314][function(conn, opt)] Trying to download "https://www.lipidmaps.org/data?LMID=LMFA00000001".
biodb.DEBUG[2024-10-12 16:02:36.425][getUrlContent] Use RCurl for downloading content of URL https://www.lipidmaps.org/data?LMID=LMFA00000001.
biodb.INFO [2024-10-12 16:02:38.531][biodb::testThat]
biodb.INFO [2024-10-12 16:02:38.532][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-10-12 16:02:38.533][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:02:38.534][biodb::testThat]
biodb.TRACE[2024-10-12 16:02:38.542][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:38.543][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:38.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:38.546][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:38.547][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:38.548][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:38.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:38.551][ef$get] fields variable is a list.
biodb.INFO [2024-10-12 16:02:38.553][biodb::testThat]
biodb.INFO [2024-10-12 16:02:38.554][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2024-10-12 16:02:38.555][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:02:38.556][biodb::testThat]
biodb.TRACE[2024-10-12 16:02:38.570][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:38.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:38.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:38.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:38.575][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:38.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:38.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:38.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:38.579][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:38.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:38.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:38.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:02:38.687][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[2024-10-12 16:02:38.691][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:02:38.693][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2024-10-12 16:02:38.694][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:02:38.696][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.DEBUG[2024-10-12 16:02:38.807][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[2024-10-12 16:02:38.811][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:02:38.813][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2024-10-12 16:02:38.814][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:02:38.816][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.TRACE[2024-10-12 16:02:38.833][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:02:38.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:02:38.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:38.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:38.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:02:38.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:02:38.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:38.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:38.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:38.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:38.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:38.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:38.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:38.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:38.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:38.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:38.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:38.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:38.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:38.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:38.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:38.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:38.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:38.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:38.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:38.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:38.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:38.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:02:38.886][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[2024-10-12 16:02:38.997][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:02:38.998][cch$loadFileContent] Trying to load 1 files from cache: [1]: "304383a7dc8c451be84009e31d831359".
biodb.TRACE[2024-10-12 16:02:39.000][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:02:39.243][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/304383a7dc8c451be84009e31d831359.content".
biodb.DEBUG[2024-10-12 16:02:40.495][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[2024-10-12 16:02:40.602][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:02:40.604][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7f71825f1888a7b29e4b8407502d21e3".
biodb.TRACE[2024-10-12 16:02:40.606][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:02:40.851][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/7f71825f1888a7b29e4b8407502d21e3.content".
biodb.DEBUG[2024-10-12 16:02:40.876][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[2024-10-12 16:02:40.881][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:02:40.882][cch$loadFileContent] Trying to load 1 files from cache: [1]: "fd41c675dd237f33cdaafcbb15058c54".
biodb.TRACE[2024-10-12 16:02:40.884][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:02:40.885][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/fd41c675dd237f33cdaafcbb15058c54.content".
biodb.TRACE[2024-10-12 16:02:40.906][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:02:40.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:02:40.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-10-12 16:02:40.920][biodb::testThat]
biodb.INFO [2024-10-12 16:02:40.921][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-10-12 16:02:40.922][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:02:40.924][biodb::testThat]
biodb.TRACE[2024-10-12 16:02:40.927][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:02:40.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:02:40.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:40.932][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:02:40.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:02:40.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:40.936][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:02:40.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:02:40.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:40.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:02:40.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:02:40.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:40.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:02:40.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:02:40.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:40.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:02:40.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:02:40.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:40.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:40.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:40.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:40.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:40.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:40.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:40.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:40.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:40.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:40.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:40.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:41.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:41.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:41.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:41.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:41.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:41.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:41.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:41.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:41.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:41.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:41.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:41.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:41.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:41.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:41.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:02:41.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:41.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:41.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:41.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:41.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:41.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:41.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:41.045][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[2024-10-12 16:02:41.246][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:02:41.248][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2024-10-12 16:02:41.250][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:02:41.326][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2024-10-12 16:02:42.379][private$loadEntries] Creating entries from ids [1]: "LMFA00000003".
biodb.DEBUG[2024-10-12 16:02:42.444][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2024-10-12 16:02:42.446][cch$loadFileContent] Trying to load 1 files from cache: [1]: "LMFA00000003".
biodb.TRACE[2024-10-12 16:02:42.448][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:02:42.467][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000003.tsv".
biodb.DEBUG[2024-10-12 16:02:42.469][conn$getEntryContent] 1 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2024-10-12 16:02:42.470][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2024-10-12 16:02:42.472][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2024-10-12 16:02:42.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:42.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:42.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:42.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:42.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:42.484][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:42.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:02:42.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:42.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:42.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:42.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:42.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:02:42.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:02:42.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.505][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:42.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:02:42.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.511][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:42.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:02:42.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.520][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:42.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:42.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.529][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:42.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:02:42.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.534][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:42.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:42.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.539][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:42.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:02:42.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.544][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:02:42.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:42.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.549][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:02:42.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:02:42.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.554][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:42.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:42.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.559][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:02:42.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:02:42.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:42.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:42.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.570][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:42.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:42.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.576][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:02:42.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:42.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.582][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2024-10-12 16:02:42.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:42.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.588][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:42.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:42.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.594][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:02:42.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:42.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.600][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:02:42.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:02:42.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.606][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.612][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:42.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:42.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.627][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:42.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:42.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:42.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:42.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:42.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:42.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:42.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:42.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:42.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:42.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:02:42.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:02:42.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:02:42.676][self$createEntryFromContent] Accession numbers: LMFA00000003.
biodb.DEBUG[2024-10-12 16:02:42.694][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:02:42.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:42.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:42.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:42.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:42.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:42.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:42.712][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[2024-10-12 16:02:42.714][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.720][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.726][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:42.727][private$selectFields]
biodb.TRACE[2024-10-12 16:02:42.729][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:02:42.730][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:02:42.732][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:42.733][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.735][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.738][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.739][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.741][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.744][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.745][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:42.746][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:42.748][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.749][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.752][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.754][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:02:42.755][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.761][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.767][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.788][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:02:42.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:42.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:42.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:42.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:42.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:42.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:42.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:02:42.806][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.812][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.817][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:42.819][private$selectFields]
biodb.TRACE[2024-10-12 16:02:42.820][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:02:42.822][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:02:42.823][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:42.825][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.840][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.843][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.844][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.845][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.847][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.849][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:42.850][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:42.851][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.852][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.854][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.856][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:02:42.857][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.862][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.866][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.872][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:02:42.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:42.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:42.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:42.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:42.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:42.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:42.884][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:02:42.886][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.890][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.895][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:42.896][private$selectFields]
biodb.TRACE[2024-10-12 16:02:42.898][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:02:42.899][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:02:42.900][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:42.901][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.902][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.905][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.906][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.907][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.909][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.911][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:42.912][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:42.913][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.914][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.916][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.918][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:02:42.919][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.924][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.929][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:42.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:42.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:42.934][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:02:42.935][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:02:42.936][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:02:42.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:42.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:42.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:42.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:42.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:42.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:42.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:42.955][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:02:42.960][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:02:42.961][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:02:42.963][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.TRACE[2024-10-12 16:02:44.256][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01).
biodb.DEBUG[2024-10-12 16:02:49.934][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:02:49.937][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content"
biodb.TRACE[2024-10-12 16:02:50.012][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.request"
biodb.DEBUG[2024-10-12 16:02:51.068][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:02:51.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:51.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:51.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:51.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:51.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:51.111][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:51.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:02:51.129][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.135][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.167][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:51.168][private$selectFields]
biodb.TRACE[2024-10-12 16:02:51.169][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:02:51.170][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:02:51.171][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:51.172][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.174][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.176][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.177][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.178][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.181][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.182][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:51.196][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:51.197][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.198][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.201][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.202][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:02:51.203][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.208][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.212][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.218][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:02:51.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:51.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:51.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:51.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:51.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:51.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:51.230][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:02:51.232][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.236][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.241][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:51.242][private$selectFields]
biodb.TRACE[2024-10-12 16:02:51.243][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:02:51.244][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:02:51.246][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:51.247][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.248][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.250][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.252][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.253][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.255][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.256][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:51.257][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:51.259][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.260][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.262][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.263][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:02:51.265][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.269][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.274][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.280][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:02:51.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:51.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:51.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:51.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:51.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:51.291][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:51.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:02:51.294][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.299][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.303][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:51.305][private$selectFields]
biodb.TRACE[2024-10-12 16:02:51.306][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:02:51.307][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:02:51.308][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:51.309][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.310][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.313][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.314][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.315][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.317][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.319][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:51.320][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:02:51.321][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.322][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.324][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.326][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:02:51.327][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.332][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.336][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:02:51.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:02:51.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:02:51.342][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:02:51.343][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:02:51.344][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:02:51.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:02:51.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:02:51.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:02:51.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:02:51.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:02:51.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:02:51.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:02:51.362][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:02:51.413][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:02:51.414][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:02:51.436][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.TRACE[2024-10-12 16:02:53.089][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01).
biodb.DEBUG[2024-10-12 16:02:58.901][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:02:58.907][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content"
biodb.TRACE[2024-10-12 16:02:59.068][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.request"
biodb.DEBUG[2024-10-12 16:03:00.094][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:03:00.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:00.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:00.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:00.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:00.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:00.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:00.108][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.TRACE[2024-10-12 16:03:00.110][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.115][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.120][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:00.121][private$selectFields]
biodb.TRACE[2024-10-12 16:03:00.122][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:00.123][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:00.124][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:00.125][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.127][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.129][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.130][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.132][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.134][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.135][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:00.136][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:00.137][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.139][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.141][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.142][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:00.143][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.148][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.153][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.159][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:03:00.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:00.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:00.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:00.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:00.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:00.170][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:00.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:00.173][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.178][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.183][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:00.184][private$selectFields]
biodb.TRACE[2024-10-12 16:03:00.185][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:00.186][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:00.187][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:00.189][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.190][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.192][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.193][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.195][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.197][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.198][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:00.200][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:00.201][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.202][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.204][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.206][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:00.207][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.212][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.217][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.222][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:03:00.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:00.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:00.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:00.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:00.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:00.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:00.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:00.236][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.241][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.246][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:00.247][private$selectFields]
biodb.TRACE[2024-10-12 16:03:00.248][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:00.250][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:00.251][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:00.252][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.253][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.256][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.257][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.258][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.261][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.262][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:00.263][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:00.264][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.266][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.268][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.269][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:00.270][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.275][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.280][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:00.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.286][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:03:00.287][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:03:00.288][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-10-12 16:03:00.299][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:00.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:00.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.304][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:00.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:00.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.309][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:00.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:00.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-10-12 16:03:00.318][biodb::testThat]
biodb.INFO [2024-10-12 16:03:00.320][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-10-12 16:03:00.321][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:03:00.322][biodb::testThat]
biodb.TRACE[2024-10-12 16:03:00.325][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:03:00.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:03:00.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.330][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:03:00.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:03:00.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.335][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:03:00.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:03:00.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:00.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:00.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:00.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:00.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:00.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:00.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:00.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:00.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:00.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:03:00.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:00.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:00.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:00.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:00.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:00.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:00.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:03:00.528][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[2024-10-12 16:03:00.533][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:03:00.535][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5652f5994fce967a05a065a71bac3ed6".
biodb.TRACE[2024-10-12 16:03:00.536][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:03:00.611][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/5652f5994fce967a05a065a71bac3ed6.content".
biodb.DEBUG[2024-10-12 16:03:01.811][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:03:01.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:01.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:01.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:01.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:01.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:01.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:01.826][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:03:01.827][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.832][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.837][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:01.838][private$selectFields]
biodb.TRACE[2024-10-12 16:03:01.839][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:01.840][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:01.842][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:01.843][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.844][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.846][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.848][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.849][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.851][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.853][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:01.854][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:01.855][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.856][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.859][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.860][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:01.861][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.866][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.871][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.876][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:03:01.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:01.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:01.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:01.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:01.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:01.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:01.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:01.891][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.896][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.900][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:01.902][private$selectFields]
biodb.TRACE[2024-10-12 16:03:01.903][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:01.904][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:01.905][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:01.907][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.908][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.910][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.912][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.913][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.916][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.917][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:01.918][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:01.919][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.921][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.923][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.924][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:01.926][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.931][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.936][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.941][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:03:01.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:01.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:01.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:01.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:01.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:01.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:01.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:01.956][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.961][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.966][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:01.967][private$selectFields]
biodb.TRACE[2024-10-12 16:03:01.969][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:01.970][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:01.971][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:01.972][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.974][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.976][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.977][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.979][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.981][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.982][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:01.983][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:01.985][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.986][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.988][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.990][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:01.991][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:01.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:01.996][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:01.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:02.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:02.002][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:02.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:02.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:02.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:02.008][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:03:02.009][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:03:02.010][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:03:02.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:02.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:02.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:02.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:02.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:02.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:02.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:03:02.029][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.00412759911".
biodb.DEBUG[2024-10-12 16:03:02.034][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:03:02.036][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:03:02.038][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.00412759911".
biodb.TRACE[2024-10-12 16:03:03.354][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.00412759911).
biodb.DEBUG[2024-10-12 16:03:08.872][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:03:08.874][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/caf6ace8482be3630c2e179e272c9f63.content"
biodb.TRACE[2024-10-12 16:03:08.938][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/caf6ace8482be3630c2e179e272c9f63.request"
biodb.DEBUG[2024-10-12 16:03:10.126][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:03:10.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:10.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:10.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:10.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:10.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:10.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:10.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:10.142][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.147][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.152][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:10.153][private$selectFields]
biodb.TRACE[2024-10-12 16:03:10.154][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:10.156][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:10.157][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:10.158][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.160][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.162][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.163][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.164][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.167][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.168][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:10.169][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:10.171][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.172][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.174][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.176][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:10.177][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.182][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.187][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.192][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:03:10.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:10.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:10.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:10.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:10.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:10.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:10.206][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:03:10.207][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.212][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.217][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:10.219][private$selectFields]
biodb.TRACE[2024-10-12 16:03:10.220][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:10.221][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:10.222][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:10.223][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.225][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.227][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.229][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.230][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.232][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.234][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:10.235][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:10.236][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.237][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.240][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.241][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:10.242][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.247][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.252][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.258][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:03:10.259][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:10.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:10.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:10.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:10.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:10.270][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:10.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:10.273][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.278][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.284][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:10.285][private$selectFields]
biodb.TRACE[2024-10-12 16:03:10.286][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:10.287][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:10.288][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:10.290][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.291][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.293][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.295][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.296][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.298][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.300][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:10.301][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:10.302][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.303][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.306][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.307][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:10.308][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.313][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.319][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:10.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:10.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:10.325][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:03:10.327][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:03:10.328][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:03:10.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:10.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:10.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:10.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:10.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:10.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:10.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:03:10.350][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.004489236435".
biodb.DEBUG[2024-10-12 16:03:10.354][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:03:10.355][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:03:10.358][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.004489236435".
biodb.TRACE[2024-10-12 16:03:11.650][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.004489236435).
biodb.DEBUG[2024-10-12 16:03:18.513][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:03:18.516][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/8b6f4df3787f4a46fc24f669a9568b94.content"
biodb.TRACE[2024-10-12 16:03:18.585][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/8b6f4df3787f4a46fc24f669a9568b94.request"
biodb.DEBUG[2024-10-12 16:03:19.612][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:03:19.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:19.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:19.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:19.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:19.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:19.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:19.626][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:03:19.628][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.632][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.637][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:19.638][private$selectFields]
biodb.TRACE[2024-10-12 16:03:19.640][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:19.641][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:19.642][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:19.643][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.644][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.647][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.648][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.649][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.652][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.653][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:19.654][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:19.656][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.657][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.659][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.660][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:19.662][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.667][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.672][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.677][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:03:19.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:19.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:19.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:19.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:19.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:19.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:19.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:19.692][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.697][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.702][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:19.703][private$selectFields]
biodb.TRACE[2024-10-12 16:03:19.704][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:19.705][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:19.706][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:19.708][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.709][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.711][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.713][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.714][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.716][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.718][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:19.719][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:19.720][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.721][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.724][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.725][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:19.726][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.731][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.736][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.741][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:03:19.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:19.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:19.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:19.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:19.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:19.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:19.755][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:03:19.756][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.761][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.766][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:19.767][private$selectFields]
biodb.TRACE[2024-10-12 16:03:19.768][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:19.769][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:19.771][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:19.772][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.773][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.775][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.776][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.777][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.778][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.781][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.782][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:19.783][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:19.784][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.786][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.788][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.789][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:19.791][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.796][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.801][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:19.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.806][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:03:19.808][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:03:19.809][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-10-12 16:03:19.820][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:19.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:19.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.826][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:19.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:19.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.831][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:19.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:19.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-10-12 16:03:19.841][biodb::testThat]
biodb.INFO [2024-10-12 16:03:19.842][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-10-12 16:03:19.843][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:03:19.845][biodb::testThat]
biodb.TRACE[2024-10-12 16:03:19.848][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:03:19.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:03:19.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.853][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:03:19.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:03:19.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.858][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:03:19.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:03:19.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:19.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:19.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:19.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:19.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:19.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:19.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:19.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:19.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:19.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:03:19.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:19.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:19.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:19.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:19.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:19.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:19.963][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[2024-10-12 16:03:19.968][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[2024-10-12 16:03:19.972][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:03:19.974][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2024-10-12 16:03:19.976][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:03:20.008][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2024-10-12 16:03:21.046][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:03:21.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:21.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:21.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:21.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:21.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:21.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:21.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:21.063][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.068][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.072][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:21.074][private$selectFields]
biodb.TRACE[2024-10-12 16:03:21.075][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:21.076][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:21.077][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:21.078][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.080][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.082][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.083][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.085][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.087][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.088][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:21.089][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:21.090][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.092][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.094][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.095][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:21.097][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.102][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.106][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.112][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:03:21.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:21.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:21.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:21.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:21.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:21.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:21.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:21.126][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.131][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.136][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:21.138][private$selectFields]
biodb.TRACE[2024-10-12 16:03:21.139][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:21.140][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:21.141][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:21.142][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.144][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.146][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.147][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.149][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.151][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.152][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:21.153][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:21.155][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.156][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.158][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.160][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:21.161][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.166][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.171][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.176][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:03:21.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:21.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:21.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:21.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:21.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:21.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:21.189][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:03:21.190][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.195][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.200][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:21.201][private$selectFields]
biodb.TRACE[2024-10-12 16:03:21.203][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:21.204][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:21.205][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:21.206][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.208][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.210][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.211][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.212][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.215][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.216][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:21.217][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:21.218][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.220][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.222][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.223][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:21.225][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.230][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.235][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:21.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:21.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:21.240][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:03:21.241][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:03:21.242][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:03:21.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:21.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:21.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:21.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:21.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:21.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:21.257][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[2024-10-12 16:03:21.261][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:03:21.265][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:03:21.267][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2024-10-12 16:03:21.269][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:03:21.323][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2024-10-12 16:03:22.344][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:03:22.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:22.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:22.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:22.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:22.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:22.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:22.358][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.TRACE[2024-10-12 16:03:22.359][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.364][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.369][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:22.370][private$selectFields]
biodb.TRACE[2024-10-12 16:03:22.371][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:22.372][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:22.374][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:22.375][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.376][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.378][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.380][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.381][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.383][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.385][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:22.386][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:22.387][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.388][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.389][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.391][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.392][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:22.393][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.398][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.403][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.409][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:03:22.410][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:22.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:22.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:22.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:22.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:22.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:22.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:22.423][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.428][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.433][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:22.434][private$selectFields]
biodb.TRACE[2024-10-12 16:03:22.436][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:22.437][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:22.438][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:22.439][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.441][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.443][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.444][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.446][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.448][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.449][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:22.451][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:22.452][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.453][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.456][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.457][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:22.458][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.463][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.468][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.474][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:03:22.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:22.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:22.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:22.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:22.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:22.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:22.487][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:03:22.488][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.493][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.498][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:22.499][private$selectFields]
biodb.TRACE[2024-10-12 16:03:22.501][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:22.502][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:22.503][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:22.504][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.506][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.508][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.509][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.511][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.513][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.514][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:22.516][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:22.517][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.518][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.520][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.521][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.522][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:22.523][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.528][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.533][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:22.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:22.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:22.539][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:03:22.540][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:03:22.541][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:03:22.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:22.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:22.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:22.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:22.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:22.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:22.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:03:22.560][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:03:22.565][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:03:22.566][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2024-10-12 16:03:22.568][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:03:22.599][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2024-10-12 16:03:23.652][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:03:23.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:23.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:23.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:23.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:23.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:23.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:23.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:23.667][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.672][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.677][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:23.678][private$selectFields]
biodb.TRACE[2024-10-12 16:03:23.679][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:23.680][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:23.682][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:23.683][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.684][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.686][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.688][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.689][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.691][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.692][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:23.694][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:23.695][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.696][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.698][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.700][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:23.701][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.706][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.711][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.716][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:03:23.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:23.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:23.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:23.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:23.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:23.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:23.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:23.730][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.735][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.740][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:23.741][private$selectFields]
biodb.TRACE[2024-10-12 16:03:23.743][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:23.744][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:23.745][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:23.746][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.748][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.750][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.751][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.753][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.755][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.756][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:23.758][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:23.759][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.760][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.762][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.764][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:23.765][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.770][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.775][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.780][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:03:23.781][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:23.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:23.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:23.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:23.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:23.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:23.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:23.795][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.800][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.805][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:23.806][private$selectFields]
biodb.TRACE[2024-10-12 16:03:23.807][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:23.808][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:23.809][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:23.811][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.812][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.814][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.815][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.817][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.819][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.820][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:23.822][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:23.823][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.824][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.827][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.828][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:23.829][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.834][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.839][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:23.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.845][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:03:23.846][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:03:23.847][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-10-12 16:03:23.873][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:23.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:23.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.878][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:23.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:23.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.883][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:23.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:03:23.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.891][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:03:23.893][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:03:23.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.895][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.896][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.898][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.900][ef$get] fields variable is a list.
biodb.INFO [2024-10-12 16:03:23.902][biodb::testThat]
biodb.INFO [2024-10-12 16:03:23.903][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2024-10-12 16:03:23.904][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:03:23.905][biodb::testThat]
biodb.TRACE[2024-10-12 16:03:23.909][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:03:23.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:03:23.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.914][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:03:23.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:03:23.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.919][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:03:23.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:03:23.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:23.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:23.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:23.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:23.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:23.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:03:23.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.959][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:23.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:03:23.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:23.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:03:24.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:24.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:24.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:24.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:24.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:24.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:24.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:03:24.020][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.391025&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:03:24.025][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:03:24.027][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:03:24.029][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.391025&ExactMassOffSet=0.11".
biodb.TRACE[2024-10-12 16:03:25.323][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.391025&ExactMassOffSet=0.11).
biodb.DEBUG[2024-10-12 16:03:30.824][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:03:30.826][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/856708e2bbeea806179c75604ab7003a.content"
biodb.TRACE[2024-10-12 16:03:30.890][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/856708e2bbeea806179c75604ab7003a.request"
biodb.DEBUG[2024-10-12 16:03:31.926][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:03:31.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:31.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:31.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:31.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:31.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:31.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:31.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:31.941][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:31.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:31.946][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:31.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:31.950][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:31.952][private$selectFields]
biodb.TRACE[2024-10-12 16:03:31.953][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:31.954][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:31.955][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:31.956][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.957][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:31.960][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:31.961][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.962][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:31.964][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:31.966][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:31.967][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:31.968][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.969][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:31.971][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:31.973][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:31.974][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:31.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:31.979][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:31.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:31.983][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:31.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:31.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:31.989][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:03:31.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:31.991][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:31.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:31.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:31.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:32.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:32.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:32.003][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.008][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.012][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:32.013][private$selectFields]
biodb.TRACE[2024-10-12 16:03:32.015][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:32.016][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:32.017][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:32.018][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.019][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.022][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.023][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.024][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.026][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.028][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:32.029][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:32.030][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.031][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.033][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.035][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:32.036][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.041][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.045][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.051][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:03:32.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:32.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:32.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:32.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:32.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:32.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:32.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:32.065][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.069][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.074][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:32.075][private$selectFields]
biodb.TRACE[2024-10-12 16:03:32.076][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:32.078][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:32.079][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:32.080][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.081][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.083][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.085][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.086][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.088][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.090][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:32.091][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:32.092][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.093][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.096][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.097][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:32.099][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.104][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.109][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:32.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:32.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:32.114][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:03:32.115][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:03:32.116][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:03:32.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:32.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:32.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:32.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:32.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:32.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:32.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:03:32.135][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.073274&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:03:32.140][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:03:32.142][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:03:32.145][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.073274&ExactMassOffSet=0.11".
biodb.TRACE[2024-10-12 16:03:33.440][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.073274&ExactMassOffSet=0.11).
biodb.DEBUG[2024-10-12 16:03:38.955][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:03:38.958][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/213dc74fea82b4e00a3de9c6296d60ac.content"
biodb.TRACE[2024-10-12 16:03:39.043][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/213dc74fea82b4e00a3de9c6296d60ac.request"
biodb.DEBUG[2024-10-12 16:03:40.069][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:03:40.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:40.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:40.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:40.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:40.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:40.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:40.083][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:03:40.084][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.089][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.094][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:40.095][private$selectFields]
biodb.TRACE[2024-10-12 16:03:40.097][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:40.098][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:40.099][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:40.100][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.102][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.104][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.105][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.106][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.109][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.110][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:40.111][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:40.112][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.114][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.116][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.117][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:40.119][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.123][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.128][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.134][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:03:40.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:40.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:40.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:40.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:40.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:40.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:40.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:40.149][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.153][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.158][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:40.159][private$selectFields]
biodb.TRACE[2024-10-12 16:03:40.160][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:40.162][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:40.163][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:40.164][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.165][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.167][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.169][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.170][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.172][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.173][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:40.175][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:40.176][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.177][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.179][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.180][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:40.182][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.186][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.191][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.196][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:03:40.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:40.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:40.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:40.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:40.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:40.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:40.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:40.211][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.215][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.220][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:40.222][private$selectFields]
biodb.TRACE[2024-10-12 16:03:40.223][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:40.224][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:40.225][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:40.226][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.227][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.230][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.231][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.232][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.235][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.236][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:40.237][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:40.238][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.239][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.242][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.243][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:40.244][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.249][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.254][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:40.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:40.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:40.259][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:03:40.260][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:03:40.261][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:03:40.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:40.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:40.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:40.272][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:40.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:40.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:40.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:03:40.279][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.182429&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:03:40.283][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:03:40.285][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:03:40.287][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.182429&ExactMassOffSet=0.11".
biodb.TRACE[2024-10-12 16:03:41.578][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.182429&ExactMassOffSet=0.11).
biodb.DEBUG[2024-10-12 16:03:48.417][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:03:48.420][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/599a9d63e9d10326d614f066b3a2769e.content"
biodb.TRACE[2024-10-12 16:03:48.484][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/599a9d63e9d10326d614f066b3a2769e.request"
biodb.DEBUG[2024-10-12 16:03:49.547][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:03:49.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:49.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:49.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:49.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:49.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:49.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:49.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:49.562][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.567][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.572][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:49.573][private$selectFields]
biodb.TRACE[2024-10-12 16:03:49.574][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:49.575][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:49.576][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:49.578][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.579][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.581][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.582][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.584][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.586][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.587][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:49.588][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:49.590][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.591][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.593][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.594][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:49.596][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.601][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.606][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.611][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:03:49.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:49.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:49.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:49.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:49.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:49.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:49.625][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:03:49.626][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.631][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.636][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:49.638][private$selectFields]
biodb.TRACE[2024-10-12 16:03:49.639][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:49.640][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:49.641][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:49.642][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.644][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.646][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.647][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.649][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.651][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.652][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:49.653][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:49.655][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.656][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.658][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.660][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:49.661][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.666][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.672][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.678][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:03:49.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:49.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:49.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:49.688][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:49.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:49.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:49.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:49.693][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.698][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.703][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:49.704][private$selectFields]
biodb.TRACE[2024-10-12 16:03:49.705][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:49.706][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:49.707][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:49.709][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.711][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.713][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.715][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.716][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.718][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.720][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:49.721][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:49.722][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.724][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.726][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.728][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:49.729][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.734][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.739][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:49.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:49.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:49.744][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:03:49.746][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:03:49.748][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:03:49.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:49.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:49.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:49.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:49.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:49.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:49.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:03:49.793][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:03:49.798][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:03:49.800][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2024-10-12 16:03:49.802][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:03:49.834][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2024-10-12 16:03:50.852][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:03:50.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:50.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:50.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:50.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:50.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:50.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:50.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:50.868][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.873][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.878][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:50.879][private$selectFields]
biodb.TRACE[2024-10-12 16:03:50.880][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:50.881][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:50.883][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:50.884][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.885][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.888][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.889][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.890][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.892][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.894][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:50.895][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:50.896][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.897][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.900][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.901][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:50.902][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.907][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.912][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.917][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:03:50.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:50.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:50.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:50.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:50.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:50.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:50.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:50.932][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.937][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.942][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:50.943][private$selectFields]
biodb.TRACE[2024-10-12 16:03:50.944][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:50.945][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:50.946][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:50.948][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.949][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.951][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.953][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.954][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.956][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.958][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:50.959][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:50.960][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.961][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.964][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.965][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:50.966][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.971][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.976][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:50.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:50.982][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:03:50.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:50.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:50.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:50.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:50.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:50.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:50.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:50.996][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:50.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:51.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:51.001][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:51.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:51.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:51.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:51.006][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:51.007][private$selectFields]
biodb.TRACE[2024-10-12 16:03:51.008][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:51.009][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:51.011][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:51.012][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:51.013][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:51.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:51.015][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:51.017][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:51.018][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:51.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:51.020][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:51.022][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:51.023][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:51.024][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:51.025][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:51.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:51.028][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:51.029][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:51.030][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:51.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:51.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:51.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:51.035][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:51.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:51.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:51.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:51.040][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:51.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:51.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:51.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:51.046][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:03:51.047][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:03:51.048][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:03:51.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:51.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:51.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:51.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:51.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:51.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:51.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:03:51.066][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:03:51.070][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:03:51.072][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2024-10-12 16:03:51.073][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:03:51.126][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2024-10-12 16:03:52.147][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:03:52.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:52.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:52.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:52.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:52.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:52.160][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:52.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:52.162][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.168][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.173][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:52.174][private$selectFields]
biodb.TRACE[2024-10-12 16:03:52.175][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:52.176][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:52.178][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:52.179][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.180][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.183][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.184][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.185][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.186][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.187][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.189][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:52.190][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:52.191][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.192][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.195][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.196][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:52.197][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.203][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.208][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.213][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:03:52.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:52.216][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:52.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:52.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:52.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:52.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:52.226][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:03:52.228][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.233][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.238][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:52.239][private$selectFields]
biodb.TRACE[2024-10-12 16:03:52.240][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:52.241][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:52.242][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:52.244][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.245][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.247][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.248][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.250][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.252][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.253][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:52.254][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:52.256][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.257][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.259][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.261][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:52.262][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.267][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.272][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.277][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:03:52.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:52.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:52.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:52.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:52.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:52.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:52.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:52.291][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.296][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.301][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:52.302][private$selectFields]
biodb.TRACE[2024-10-12 16:03:52.303][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:52.305][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:52.306][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:52.307][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.308][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.311][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.312][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.313][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.316][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.317][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:52.318][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:52.319][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.321][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.323][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.324][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:52.326][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.330][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.335][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:52.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:52.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:52.341][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:03:52.342][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:03:52.343][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:03:52.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:52.346][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:52.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:52.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:52.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:52.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:52.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:03:52.361][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:03:52.365][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:03:52.367][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2024-10-12 16:03:52.368][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:03:52.399][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2024-10-12 16:03:53.453][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:03:53.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:53.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:53.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:53.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:53.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:53.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:53.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:53.469][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.474][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.479][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:53.480][private$selectFields]
biodb.TRACE[2024-10-12 16:03:53.481][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:53.482][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:53.484][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:53.485][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.486][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.489][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.490][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.491][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.494][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.495][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:53.496][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:53.497][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.499][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.501][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.502][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:53.503][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.508][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.513][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.519][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:03:53.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:53.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:53.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:53.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:53.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:53.530][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:53.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:53.533][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.538][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.542][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:53.544][private$selectFields]
biodb.TRACE[2024-10-12 16:03:53.545][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:53.546][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:53.547][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:53.548][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.550][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.552][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.553][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.555][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.557][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.558][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:53.559][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:53.561][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.562][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.564][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.565][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:53.567][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.572][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.577][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.582][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:03:53.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:53.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:53.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:53.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:53.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:53.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:53.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:03:53.596][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.601][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.606][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:53.607][private$selectFields]
biodb.TRACE[2024-10-12 16:03:53.609][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:03:53.610][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:03:53.611][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:53.612][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.613][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.616][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.617][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.618][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.621][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.622][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:53.623][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:03:53.624][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.626][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.628][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.629][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:03:53.631][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.635][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.640][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:03:53.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:03:53.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:03:53.646][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:03:53.647][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:03:53.648][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:03:53.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:03:53.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:03:53.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:03:53.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:03:53.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:03:53.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:03:53.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:03:53.688][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.591025&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:03:53.770][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:03:53.772][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:03:53.774][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.591025&ExactMassOffSet=0.11".
biodb.TRACE[2024-10-12 16:03:55.070][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.591025&ExactMassOffSet=0.11).
biodb.DEBUG[2024-10-12 16:04:01.757][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:04:01.760][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/ec7b47285bd6f593d724b6f7745f0646.content"
biodb.TRACE[2024-10-12 16:04:01.831][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/ec7b47285bd6f593d724b6f7745f0646.request"
biodb.DEBUG[2024-10-12 16:04:02.879][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:02.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:02.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:02.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:02.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:02.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:02.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:02.893][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:04:02.894][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:02.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:02.899][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:02.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:02.904][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:02.905][private$selectFields]
biodb.TRACE[2024-10-12 16:04:02.906][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:02.907][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:02.909][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:02.910][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.911][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:02.914][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:02.915][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.916][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:02.918][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:02.920][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:02.921][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:02.922][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.924][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:02.926][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:02.927][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:02.928][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:02.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:02.933][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:02.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:02.938][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:02.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:02.944][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:04:02.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:02.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:02.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:02.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:02.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:02.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:02.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:02.958][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:02.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:02.963][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:02.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:02.968][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:02.969][private$selectFields]
biodb.TRACE[2024-10-12 16:04:02.970][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:02.971][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:02.972][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:02.973][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.975][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:02.977][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:02.978][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.980][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.981][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:02.982][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:02.983][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:02.984][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:02.986][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.987][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:02.989][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:02.990][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:02.992][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:02.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:02.997][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:02.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:03.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:03.002][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:03.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:03.007][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:04:03.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:03.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:03.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:03.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:03.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:03.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:03.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:03.021][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:03.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:03.026][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:03.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:03.031][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:03.032][private$selectFields]
biodb.TRACE[2024-10-12 16:04:03.033][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:03.035][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:03.036][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:03.037][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.038][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:03.041][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:03.042][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.043][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:03.045][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:03.047][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:03.048][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:03.049][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.050][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:03.053][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:03.054][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:03.055][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:03.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:03.060][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:03.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:03.065][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:03.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:03.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:03.071][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:04:03.072][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:03.073][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:03.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:03.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:03.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:03.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:03.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:03.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:03.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:04:03.092][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.273274&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:04:03.097][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:04:03.098][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:04:03.101][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.273274&ExactMassOffSet=0.11".
biodb.TRACE[2024-10-12 16:04:04.397][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.273274&ExactMassOffSet=0.11).
biodb.DEBUG[2024-10-12 16:04:09.892][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:04:09.897][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/236b5f2d20f6da60d3d5e29141c3c6fd.content"
biodb.TRACE[2024-10-12 16:04:09.962][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/236b5f2d20f6da60d3d5e29141c3c6fd.request"
biodb.DEBUG[2024-10-12 16:04:10.983][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:10.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:10.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:10.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:10.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:10.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:10.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:10.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:10.998][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:10.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.003][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.008][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:11.009][private$selectFields]
biodb.TRACE[2024-10-12 16:04:11.010][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:11.011][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:11.012][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:11.013][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.015][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.017][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.018][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.020][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.022][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.023][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:11.024][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:11.026][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.027][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.029][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.030][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:11.032][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.037][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.041][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.047][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:04:11.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:11.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:11.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:11.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:11.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:11.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:11.059][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:04:11.061][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.065][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.070][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:11.071][private$selectFields]
biodb.TRACE[2024-10-12 16:04:11.072][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:11.074][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:11.075][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:11.076][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.077][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.080][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.081][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.082][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.084][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.086][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:11.087][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:11.088][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.089][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.091][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.093][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:11.094][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.099][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.103][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.109][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:04:11.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:11.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:11.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:11.118][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:11.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:11.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:11.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:11.123][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.128][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.133][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:11.134][private$selectFields]
biodb.TRACE[2024-10-12 16:04:11.135][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:11.137][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:11.138][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:11.142][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.143][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.146][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.147][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.148][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.150][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.152][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:11.153][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:11.154][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.156][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.158][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.159][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:11.160][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.165][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.170][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:11.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:11.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:11.176][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:04:11.177][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:11.178][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:11.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:11.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:11.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:11.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:11.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:11.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:11.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:04:11.196][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.382429&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:04:11.201][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:04:11.202][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:04:11.205][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.382429&ExactMassOffSet=0.11".
biodb.TRACE[2024-10-12 16:04:12.497][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.382429&ExactMassOffSet=0.11).
biodb.DEBUG[2024-10-12 16:04:17.983][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:04:17.989][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/c0ec3345a6e512e30aa3c52ef1c02f40.content"
biodb.TRACE[2024-10-12 16:04:18.107][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/c0ec3345a6e512e30aa3c52ef1c02f40.request"
biodb.DEBUG[2024-10-12 16:04:19.127][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:19.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:19.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:19.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:19.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:19.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:19.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:19.141][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:04:19.142][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.147][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.152][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:19.154][private$selectFields]
biodb.TRACE[2024-10-12 16:04:19.155][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:19.156][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:19.157][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:19.158][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.160][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.162][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.163][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.164][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.167][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.168][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:19.169][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:19.170][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.172][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.174][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.175][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:19.176][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.181][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.186][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.192][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:04:19.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:19.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:19.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:19.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:19.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:19.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:19.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:19.207][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.211][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.216][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:19.217][private$selectFields]
biodb.TRACE[2024-10-12 16:04:19.219][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:19.220][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:19.221][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:19.222][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.224][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.226][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.227][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.228][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.231][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.232][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:19.233][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:19.234][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.236][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.238][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.239][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:19.240][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.245][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.250][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.255][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:04:19.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:19.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:19.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:19.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:19.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:19.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:19.269][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[2024-10-12 16:04:19.270][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.275][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.280][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:19.281][private$selectFields]
biodb.TRACE[2024-10-12 16:04:19.282][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:19.283][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:19.285][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:19.286][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.287][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.289][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.291][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.292][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.294][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.296][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:19.297][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:19.298][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.299][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.302][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.303][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:19.304][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.309][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.314][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:19.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:19.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:19.319][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:04:19.320][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:19.321][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:19.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:19.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:19.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:19.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:19.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:19.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:19.359][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[2024-10-12 16:04:19.363][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.391025&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:04:19.367][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:19.369][cch$loadFileContent] Trying to load 1 files from cache: [1]: "856708e2bbeea806179c75604ab7003a".
biodb.TRACE[2024-10-12 16:04:19.370][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:19.418][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/856708e2bbeea806179c75604ab7003a.content".
biodb.DEBUG[2024-10-12 16:04:20.419][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:20.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:20.422][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:20.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:20.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:20.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:20.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:20.433][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:04:20.434][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.439][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.444][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:20.445][private$selectFields]
biodb.TRACE[2024-10-12 16:04:20.447][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:20.448][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:20.449][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:20.450][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.451][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.454][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.456][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.457][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.460][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.461][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:20.462][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:20.464][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.465][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.468][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.469][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:20.470][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.475][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.480][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.486][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:04:20.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:20.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:20.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:20.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:20.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:20.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:20.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:20.500][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.505][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.509][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:20.511][private$selectFields]
biodb.TRACE[2024-10-12 16:04:20.512][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:20.513][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:20.514][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:20.515][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.517][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.519][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.520][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.521][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.524][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.525][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:20.526][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:20.527][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.528][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.531][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.532][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:20.533][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.538][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.543][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.548][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:04:20.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:20.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:20.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:20.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:20.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:20.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:20.575][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:04:20.577][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.582][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.586][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:20.587][private$selectFields]
biodb.TRACE[2024-10-12 16:04:20.589][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:20.590][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:20.591][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:20.592][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.593][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.596][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.597][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.598][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.600][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.601][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:20.603][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:20.604][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.605][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.607][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.609][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:20.610][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.615][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.619][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:20.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:20.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:20.625][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:04:20.626][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:20.627][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:20.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:20.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:20.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:20.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:20.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:20.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:20.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:04:20.644][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.073274&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:04:20.649][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:20.650][cch$loadFileContent] Trying to load 1 files from cache: [1]: "213dc74fea82b4e00a3de9c6296d60ac".
biodb.TRACE[2024-10-12 16:04:20.652][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:20.683][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/213dc74fea82b4e00a3de9c6296d60ac.content".
biodb.DEBUG[2024-10-12 16:04:21.706][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:21.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:21.709][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:21.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:21.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:21.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:21.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:21.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:21.721][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.726][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.730][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:21.732][private$selectFields]
biodb.TRACE[2024-10-12 16:04:21.733][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:21.734][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:21.735][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:21.736][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.738][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.740][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.741][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.742][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.745][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.746][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:21.747][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:21.749][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.750][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.752][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.754][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:21.755][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.760][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.765][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.770][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:04:21.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:21.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:21.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:21.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:21.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:21.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:21.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:21.784][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.789][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.794][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:21.795][private$selectFields]
biodb.TRACE[2024-10-12 16:04:21.796][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:21.797][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:21.798][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:21.799][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.801][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.803][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.804][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.806][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.808][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.809][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:21.810][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:21.811][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.813][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.815][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.816][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:21.818][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.822][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.827][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.832][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:04:21.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:21.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:21.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:21.842][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:21.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:21.844][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:21.845][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:04:21.847][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.851][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.856][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:21.857][private$selectFields]
biodb.TRACE[2024-10-12 16:04:21.859][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:21.860][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:21.861][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:21.862][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.863][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.866][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.867][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.868][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.871][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.872][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:21.873][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:21.874][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.875][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.878][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.879][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:21.880][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.885][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.890][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:21.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:21.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:21.895][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:04:21.896][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:21.898][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:21.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:21.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:21.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:21.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:21.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:21.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:21.912][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[2024-10-12 16:04:21.915][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.182429&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:04:21.920][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:21.921][cch$loadFileContent] Trying to load 1 files from cache: [1]: "599a9d63e9d10326d614f066b3a2769e".
biodb.TRACE[2024-10-12 16:04:21.923][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:21.954][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/599a9d63e9d10326d614f066b3a2769e.content".
biodb.DEBUG[2024-10-12 16:04:23.013][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:23.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:23.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:23.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:23.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:23.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:23.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:23.027][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.TRACE[2024-10-12 16:04:23.029][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.034][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.039][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:23.040][private$selectFields]
biodb.TRACE[2024-10-12 16:04:23.041][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:23.043][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:23.044][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:23.045][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.046][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.049][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.050][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.051][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.054][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.055][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:23.056][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:23.057][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.059][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.062][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.064][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:23.065][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.070][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.075][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.080][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:04:23.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:23.083][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:23.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:23.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:23.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:23.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:23.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:23.095][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.100][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.105][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:23.106][private$selectFields]
biodb.TRACE[2024-10-12 16:04:23.107][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:23.108][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:23.109][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:23.111][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.112][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.115][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.116][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.117][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.120][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.121][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:23.122][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:23.123][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.125][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.127][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.128][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:23.130][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.134][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.139][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.145][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:04:23.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:23.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:23.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:23.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:23.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:23.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:23.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:23.159][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.164][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.168][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:23.170][private$selectFields]
biodb.TRACE[2024-10-12 16:04:23.171][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:23.172][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:23.173][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:23.174][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.176][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.178][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.179][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.181][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.183][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.184][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:23.185][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:23.186][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.188][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.190][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.191][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:23.194][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.199][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.204][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:23.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:23.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:23.209][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:04:23.211][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:23.212][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:23.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:23.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:23.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:23.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:23.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:23.248][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:23.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:04:23.253][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[2024-10-12 16:04:23.258][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:23.259][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2024-10-12 16:04:23.261][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:23.293][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2024-10-12 16:04:24.334][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:24.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:24.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:24.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:24.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:24.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:24.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:24.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:24.350][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.355][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.360][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:24.362][private$selectFields]
biodb.TRACE[2024-10-12 16:04:24.363][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:24.364][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:24.365][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:24.366][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.368][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.370][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.371][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.373][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.376][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.377][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:24.378][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:24.379][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.381][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.383][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.384][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:24.386][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.391][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.396][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.401][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:04:24.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:24.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:24.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:24.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:24.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:24.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:24.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:24.416][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.421][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.426][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:24.427][private$selectFields]
biodb.TRACE[2024-10-12 16:04:24.428][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:24.430][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:24.431][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:24.432][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.434][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.435][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.436][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.437][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.438][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.441][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.442][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:24.443][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:24.445][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.446][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.448][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.449][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:24.451][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.456][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.461][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.466][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:04:24.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:24.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:24.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:24.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:24.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:24.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:24.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:24.480][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.485][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.490][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:24.491][private$selectFields]
biodb.TRACE[2024-10-12 16:04:24.492][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:24.493][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:24.494][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:24.495][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.497][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.499][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.500][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.502][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.504][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.505][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:24.506][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:24.507][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.509][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.511][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.512][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:24.514][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.518][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.523][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:24.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:24.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:24.529][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:04:24.530][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:24.531][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:24.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:24.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:24.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:24.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:24.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:24.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:24.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:04:24.553][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:04:24.558][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:24.560][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2024-10-12 16:04:24.562][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:24.593][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2024-10-12 16:04:25.618][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:25.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:25.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:25.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:25.629][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:25.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:25.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:25.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:25.633][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.638][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.643][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:25.644][private$selectFields]
biodb.TRACE[2024-10-12 16:04:25.646][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:25.647][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:25.648][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:25.649][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.650][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.653][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.654][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.656][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.658][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.659][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:25.661][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:25.662][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.663][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.665][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.666][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:25.668][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.673][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.678][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.683][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:04:25.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:25.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:25.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:25.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:25.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:25.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:25.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:25.697][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.702][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.707][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:25.708][private$selectFields]
biodb.TRACE[2024-10-12 16:04:25.709][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:25.710][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:25.711][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:25.712][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.714][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.716][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.717][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.719][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.721][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.722][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:25.723][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:25.724][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.726][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.728][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.729][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:25.730][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.735][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.740][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.745][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:04:25.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:25.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:25.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:25.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:25.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:25.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:25.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:25.759][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.764][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.769][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:25.771][private$selectFields]
biodb.TRACE[2024-10-12 16:04:25.772][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:25.773][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:25.774][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:25.776][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.777][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.779][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.780][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.782][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.784][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.785][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:25.786][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:25.788][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.789][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.791][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.792][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:25.794][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.799][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.804][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:25.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:25.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:25.809][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:04:25.810][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:25.811][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:25.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:25.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:25.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:25.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:25.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:25.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:25.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:04:25.829][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:04:25.833][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:25.835][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2024-10-12 16:04:25.836][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:25.867][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2024-10-12 16:04:26.899][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:26.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:26.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:26.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:26.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:26.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:26.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:26.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:26.914][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:26.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:26.919][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:26.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:26.925][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:26.926][private$selectFields]
biodb.TRACE[2024-10-12 16:04:26.927][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:26.928][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:26.929][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:26.931][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.932][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:26.934][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:26.936][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.937][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:26.939][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:26.940][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:26.942][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:26.943][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.944][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:26.947][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:26.948][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:26.949][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:26.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:26.954][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:26.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:26.959][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:26.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:26.964][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:04:26.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:26.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:26.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:26.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:26.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:26.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:26.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:26.979][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:26.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:26.984][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:26.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:26.989][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:26.990][private$selectFields]
biodb.TRACE[2024-10-12 16:04:26.991][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:26.992][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:26.993][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:26.995][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.996][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:26.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:26.998][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:26.999][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.001][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:27.003][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:27.004][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:27.005][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:27.007][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.008][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:27.010][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:27.012][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:27.013][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:27.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:27.018][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:27.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:27.023][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:27.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:27.028][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:04:27.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:27.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:27.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:27.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:27.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:27.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:27.041][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.TRACE[2024-10-12 16:04:27.043][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:27.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:27.048][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:27.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:27.053][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:27.054][private$selectFields]
biodb.TRACE[2024-10-12 16:04:27.055][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:27.056][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:27.057][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:27.059][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.060][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:27.063][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:27.064][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.065][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:27.068][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:27.069][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:27.070][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:27.072][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.073][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:27.075][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:27.076][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:27.078][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:27.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:27.083][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:27.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:27.088][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:27.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:27.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:27.093][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:04:27.094][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:27.095][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:27.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:27.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:27.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:27.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:27.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:27.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:27.133][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[2024-10-12 16:04:27.137][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.591025&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:04:27.142][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:27.144][cch$loadFileContent] Trying to load 1 files from cache: [1]: "ec7b47285bd6f593d724b6f7745f0646".
biodb.TRACE[2024-10-12 16:04:27.145][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:27.177][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/ec7b47285bd6f593d724b6f7745f0646.content".
biodb.DEBUG[2024-10-12 16:04:28.217][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:28.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:28.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:28.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:28.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:28.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:28.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:28.230][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:04:28.232][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.236][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.241][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:28.242][private$selectFields]
biodb.TRACE[2024-10-12 16:04:28.243][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:28.245][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:28.246][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:28.247][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.248][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.250][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.252][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.253][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.255][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.256][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:28.258][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:28.259][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.260][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.262][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.263][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:28.265][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.270][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.275][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.281][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:04:28.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:28.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:28.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:28.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:28.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:28.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:28.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:28.295][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.300][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.305][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:28.307][private$selectFields]
biodb.TRACE[2024-10-12 16:04:28.308][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:28.309][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:28.310][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:28.311][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.313][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.316][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.317][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.319][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.321][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.322][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:28.323][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:28.325][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.326][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.328][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.329][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:28.331][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.335][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.340][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.345][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:04:28.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:28.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:28.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:28.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:28.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:28.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:28.358][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.TRACE[2024-10-12 16:04:28.359][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.364][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.369][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:28.370][private$selectFields]
biodb.TRACE[2024-10-12 16:04:28.372][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:28.373][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:28.374][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:28.375][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.377][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.379][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.380][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.381][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.383][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.384][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.385][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:28.387][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:28.389][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.390][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.392][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.393][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:28.395][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.400][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.405][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:28.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:28.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:28.410][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:04:28.412][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:28.413][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:28.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:28.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:28.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:28.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:28.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:28.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:28.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:04:28.435][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.273274&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:04:28.439][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:28.441][cch$loadFileContent] Trying to load 1 files from cache: [1]: "236b5f2d20f6da60d3d5e29141c3c6fd".
biodb.TRACE[2024-10-12 16:04:28.443][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:28.474][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/236b5f2d20f6da60d3d5e29141c3c6fd.content".
biodb.DEBUG[2024-10-12 16:04:29.509][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:29.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:29.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:29.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:29.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:29.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:29.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:29.523][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:04:29.524][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.529][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.534][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:29.535][private$selectFields]
biodb.TRACE[2024-10-12 16:04:29.536][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:29.537][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:29.538][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:29.540][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.541][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.543][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.544][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.546][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.548][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.549][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:29.551][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:29.552][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.553][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.555][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.557][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:29.558][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.563][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.568][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.574][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:04:29.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:29.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:29.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:29.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:29.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:29.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:29.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:29.588][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.593][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.598][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:29.599][private$selectFields]
biodb.TRACE[2024-10-12 16:04:29.601][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:29.602][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:29.603][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:29.604][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.606][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.608][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.609][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.610][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.613][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.614][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:29.615][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:29.617][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.618][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.620][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.621][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:29.623][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.629][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.634][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.640][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:04:29.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:29.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:29.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:29.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:29.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:29.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:29.653][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:04:29.655][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.661][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.666][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:29.667][private$selectFields]
biodb.TRACE[2024-10-12 16:04:29.668][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:29.669][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:29.671][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:29.672][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.673][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.676][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.677][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.678][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.680][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.682][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:29.683][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:29.684][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.685][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.688][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.689][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:29.690][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.695][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.700][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:29.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:29.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:29.706][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:04:29.707][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:29.708][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:29.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:29.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:29.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:29.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:29.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:29.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:29.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:04:29.726][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.382429&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:04:29.731][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:29.732][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c0ec3345a6e512e30aa3c52ef1c02f40".
biodb.TRACE[2024-10-12 16:04:29.734][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:29.765][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/c0ec3345a6e512e30aa3c52ef1c02f40.content".
biodb.DEBUG[2024-10-12 16:04:30.953][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:30.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:30.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:30.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:30.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:30.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:30.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:30.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:30.968][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:30.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:30.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:30.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:30.973][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:30.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:30.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:30.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:30.978][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:30.979][private$selectFields]
biodb.TRACE[2024-10-12 16:04:30.980][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:30.981][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:30.982][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:30.984][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:30.985][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:30.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:30.987][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:30.988][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:30.990][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:30.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:30.992][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:30.993][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:30.994][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:30.995][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:30.997][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:30.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:30.999][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.000][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:31.002][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.010][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.019][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.029][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:04:31.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:31.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:31.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:31.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:31.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:31.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:31.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:31.067][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.085][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.109][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:31.111][private$selectFields]
biodb.TRACE[2024-10-12 16:04:31.113][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:31.116][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:31.118][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:31.122][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.125][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.129][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.131][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.133][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.137][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.139][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:31.141][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:31.143][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.146][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.150][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.152][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:31.154][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.162][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.170][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.176][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:04:31.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:31.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:31.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:31.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:31.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:31.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:31.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:31.191][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.196][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.201][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:31.202][private$selectFields]
biodb.TRACE[2024-10-12 16:04:31.203][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:31.205][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:31.206][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:31.207][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.208][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.211][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.212][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.213][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.216][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.217][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:31.218][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:04:31.219][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.221][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.223][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.224][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:04:31.226][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.230][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.236][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:31.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.241][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:04:31.242][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:31.243][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-10-12 16:04:31.268][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:04:31.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:04:31.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.273][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:04:31.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:04:31.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.278][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:04:31.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:04:31.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-10-12 16:04:31.288][biodb::testThat]
biodb.INFO [2024-10-12 16:04:31.289][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2024-10-12 16:04:31.290][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:04:31.292][biodb::testThat]
biodb.TRACE[2024-10-12 16:04:31.296][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:04:31.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:04:31.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.301][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:04:31.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:04:31.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.306][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:04:31.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:04:31.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:04:31.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:04:31.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:04:31.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:04:31.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:04:31.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:04:31.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:31.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:31.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:31.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:04:31.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:31.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:31.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:31.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:31.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:31.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:31.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:04:31.408][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[2024-10-12 16:04:31.413][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:31.415][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2024-10-12 16:04:31.417][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:31.450][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2024-10-12 16:04:32.479][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:32.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:32.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:32.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:32.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:32.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:32.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:32.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:32.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:32.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:32.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:32.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:32.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.514][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.519][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.524][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:32.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:32.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.528][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:32.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:32.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.533][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.538][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.553][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:32.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:32.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.557][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:32.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:32.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.562][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.567][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.572][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:32.574][private$selectFields]
biodb.TRACE[2024-10-12 16:04:32.575][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:32.576][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:32.577][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:32.578][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:32.580][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:32.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.582][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.583][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.584][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.587][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.588][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.590][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.592][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.593][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:32.595][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:32.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.597][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.598][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.600][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.602][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.603][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.604][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.607][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.608][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:32.609][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:32.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.611][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.613][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.614][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.616][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.617][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:32.619][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:32.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.621][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.622][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.624][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.626][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.627][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.629][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.631][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.632][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:32.634][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:32.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.636][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.637][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.638][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.641][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.642][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.643][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.646][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.647][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:32.648][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:32.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.651][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.652][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.653][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.656][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.657][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:32.658][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:32.659][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:32.661][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:32.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.663][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.664][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.666][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.668][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.670][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.671][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.673][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.675][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:32.676][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:32.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.678][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.680][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.681][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.683][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.685][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.686][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.688][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.689][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:32.691][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:32.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.693][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.694][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.696][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.698][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.699][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:32.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:32.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:32.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:32.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:32.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:32.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:32.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.734][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.739][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.744][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.749][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:32.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:32.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.754][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:32.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:32.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.759][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:32.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:32.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.764][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.770][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.775][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.796][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:32.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:32.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.801][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:32.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:32.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.806][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:32.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:32.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.812][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.817][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.822][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.834][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2024-10-12 16:04:32.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:32.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:32.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:32.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:32.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:32.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:32.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:32.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:32.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:32.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:32.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:32.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.882][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.887][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.892][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:32.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:32.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.897][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:32.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:32.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.901][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.906][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.921][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:32.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:32.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:32.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:32.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.930][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.935][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.940][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:32.941][private$selectFields]
biodb.TRACE[2024-10-12 16:04:32.942][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:32.943][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:32.944][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:32.945][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:32.947][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:32.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.949][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.950][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.954][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.955][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.956][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.958][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.960][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:32.961][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:32.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.963][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.964][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.965][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:32.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.968][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.969][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.970][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:32.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.972][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.974][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:32.975][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:32.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.977][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.978][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.980][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:32.981][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.982][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.983][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:32.984][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:32.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.987][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.988][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.989][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:32.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.991][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.992][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.994][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:32.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:32.996][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:32.997][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:32.998][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:33.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.001][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.002][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.003][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.005][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.007][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.008][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.010][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.011][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:33.013][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:33.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.015][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.016][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.017][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.020][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.021][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:33.022][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:33.023][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:33.024][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:33.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.027][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.028][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.029][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.031][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.033][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.034][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.035][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.036][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.037][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:33.039][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:33.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.041][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.042][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.043][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.046][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.047][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.048][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.050][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.051][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:33.053][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:33.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.055][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.056][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.057][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.060][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.061][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:33.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:33.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:33.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:33.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:33.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:33.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:33.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.093][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.099][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.103][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.108][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:33.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:33.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.113][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:33.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:33.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.119][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:33.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:33.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.124][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.129][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.134][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:33.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:33.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.159][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:33.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:33.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:33.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:33.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.169][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.174][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.178][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.189][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000002, 137783, N-(3S-hydroxydecanoyl)-L-serine, C13H25NO5, LMFA00000002, ...].
biodb.DEBUG[2024-10-12 16:04:33.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:33.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:33.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:33.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:33.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:33.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:33.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:33.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:33.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:33.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:33.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:33.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.222][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.227][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:33.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:33.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.248][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:33.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:33.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.253][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.258][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.272][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:33.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:33.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.277][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:33.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:33.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.282][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.287][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.291][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:33.293][private$selectFields]
biodb.TRACE[2024-10-12 16:04:33.294][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:33.295][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:33.296][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:33.297][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:33.299][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:33.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.301][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.302][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.303][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.306][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.307][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.308][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.310][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.311][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:33.313][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:33.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.315][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.316][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.318][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.320][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.321][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.322][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.325][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.326][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:33.327][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:33.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.329][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.331][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.332][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.334][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.335][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:33.337][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:33.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.340][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.341][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.343][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:33.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.345][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.346][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.348][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.350][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.351][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:33.353][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:33.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.355][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.356][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.358][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.360][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.361][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.362][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.365][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.366][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:33.367][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:33.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.378][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.380][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.381][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.384][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.385][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:33.386][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:33.387][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:33.389][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:33.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.391][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.392][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.394][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.395][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.396][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.397][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:33.399][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:33.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.401][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.402][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.404][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.406][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.407][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.409][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.411][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.412][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:33.413][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:33.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.416][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.417][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.418][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.421][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.422][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:33.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:33.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:33.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:33.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:33.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:33.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:33.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.439][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.444][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.449][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:33.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.454][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:33.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:33.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.459][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:33.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:33.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.464][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:33.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:33.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.469][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.474][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.479][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:33.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:33.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.500][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:33.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:33.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.505][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:33.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:33.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.509][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:33.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:33.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.515][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.520][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.525][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:33.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:33.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:33.534][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2024-10-12 16:04:33.535][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:33.537][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:33.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:33.541][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:33.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:33.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:33.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:33.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:33.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:04:33.556][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:04:33.560][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:33.562][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2024-10-12 16:04:33.563][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:33.594][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2024-10-12 16:04:34.617][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:34.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:34.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:34.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:34.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:34.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:34.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:34.630][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:04:34.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:34.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:34.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:34.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:34.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.652][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.657][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.662][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:34.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:34.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.667][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:34.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:34.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.671][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.676][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.691][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:34.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:34.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.695][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:34.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:34.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.700][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.705][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.710][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:34.711][private$selectFields]
biodb.TRACE[2024-10-12 16:04:34.712][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:34.713][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:34.714][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:34.716][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:34.717][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:34.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.719][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.720][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.722][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.724][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.725][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.726][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.729][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.730][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:34.731][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:34.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.733][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.735][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.736][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.739][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.740][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.741][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.743][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.745][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:34.746][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:34.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.748][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.749][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.751][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.753][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.754][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:34.756][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:34.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.758][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.759][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.760][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.763][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.764][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.765][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.767][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.769][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:34.770][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:34.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.772][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.773][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.775][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.777][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.779][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.780][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.782][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.783][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:34.785][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:34.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.787][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.788][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.790][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.792][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.793][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:34.794][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:34.796][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:34.797][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:34.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.799][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.801][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.802][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.804][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.805][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.807][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.809][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.810][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:34.811][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:34.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.814][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.815][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.816][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.818][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.820][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.821][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.823][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.824][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:34.826][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:34.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.830][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.831][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.832][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.835][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.836][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:34.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:34.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:34.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:34.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:34.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:34.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:34.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:34.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.868][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.874][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.878][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:34.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.884][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:34.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:34.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.889][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:34.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:34.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.893][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:34.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:34.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.899][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.903][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.908][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:34.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:34.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:34.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:34.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.934][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:34.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:34.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.939][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:34.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:34.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.945][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.950][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.954][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:34.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.965][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2024-10-12 16:04:34.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:34.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:34.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:34.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:34.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:34.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:34.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:34.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:34.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:34.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:34.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:34.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:34.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:34.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.012][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.017][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.022][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.026][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.031][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.036][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.051][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.056][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.061][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.065][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.070][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:35.071][private$selectFields]
biodb.TRACE[2024-10-12 16:04:35.073][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:35.074][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:35.075][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:35.076][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:35.078][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:35.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.080][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.081][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.082][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.085][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.086][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.087][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.089][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.091][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.092][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.094][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.096][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.097][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.099][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.100][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.102][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.104][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.105][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.107][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.109][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.110][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.111][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.114][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.115][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:35.116][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:35.117][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.119][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.120][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.121][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.123][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.125][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.126][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.128][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.129][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.131][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.133][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.134][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.136][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.138][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.139][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.140][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.143][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.144][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.145][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.148][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.149][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.150][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.152][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.154][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:35.155][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:35.156][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:35.157][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:35.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.160][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.161][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.162][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.165][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.166][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.167][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.169][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.171][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.172][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.174][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.176][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.177][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.179][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.180][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.182][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.184][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.185][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.187][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.189][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.190][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.192][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.194][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.195][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:35.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:35.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:35.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:35.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:35.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:35.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:35.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.227][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.233][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.238][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.243][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.248][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.253][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.259][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.264][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.269][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.290][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.295][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.299][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.305][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.310][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.315][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.325][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000002, 137783, N-(3S-hydroxydecanoyl)-L-serine, C13H25NO5, LMFA00000002, ...].
biodb.DEBUG[2024-10-12 16:04:35.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:35.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:35.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:35.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:35.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:35.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:35.338][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.TRACE[2024-10-12 16:04:35.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:35.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:35.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:35.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:35.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.360][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.365][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.370][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.387][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.392][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.396][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.411][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.419][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.424][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.429][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.433][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:35.435][private$selectFields]
biodb.TRACE[2024-10-12 16:04:35.436][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:35.437][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:35.438][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:35.439][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:35.441][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:35.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.443][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.444][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.445][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.448][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.449][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.451][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.453][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.454][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.455][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.458][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.459][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.460][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.463][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.464][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.465][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.467][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.469][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.470][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.473][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.474][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.475][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.478][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.479][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:35.480][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:35.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.482][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.484][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.485][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:35.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.487][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.489][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.490][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.492][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.493][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.495][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.497][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.498][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.500][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.502][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.503][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.504][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.507][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.508][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.509][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.511][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.513][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.514][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.516][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.518][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:35.519][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:35.520][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:35.521][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:35.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.524][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.525][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.526][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.528][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.530][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.531][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.533][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.534][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.536][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.538][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.539][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.541][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.543][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.544][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.545][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.548][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.549][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.550][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.553][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.554][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:35.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:35.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:35.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:35.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:35.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:35.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:35.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.571][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.576][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.581][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:35.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.586][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.591][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.595][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:35.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:35.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.600][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.605][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.610][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:35.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:35.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.635][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:35.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:35.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.644][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.649][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.654][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:35.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:35.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:35.663][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2024-10-12 16:04:35.665][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:35.666][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:35.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:35.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:35.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:35.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:35.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:35.680][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:35.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:04:35.686][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:04:35.690][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:35.691][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2024-10-12 16:04:35.693][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:35.724][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2024-10-12 16:04:36.741][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:36.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:36.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:36.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:36.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:36.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:36.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:36.755][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:04:36.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:36.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:36.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:36.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:36.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.776][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:36.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:36.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.781][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:36.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:36.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.786][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:36.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:36.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.791][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:36.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:36.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.795][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:36.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:36.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.800][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:36.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:36.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:36.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:36.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:36.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:36.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:36.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:36.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.820][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:36.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:36.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.825][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:36.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:36.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.829][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:36.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:36.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.835][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:36.836][private$selectFields]
biodb.TRACE[2024-10-12 16:04:36.838][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:36.839][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:36.840][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:36.841][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:36.843][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:36.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.845][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.846][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.848][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.850][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.851][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:36.853][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:36.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.855][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.856][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:36.858][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:36.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.860][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.861][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:36.862][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:36.863][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.865][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.866][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:36.867][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:36.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.870][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.871][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:36.872][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:36.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.875][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.876][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:36.877][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:36.878][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.880][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.881][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:36.882][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:36.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.884][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.886][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.887][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.889][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.891][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:36.892][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:36.893][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.894][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.895][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:36.897][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:36.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.899][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.900][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:36.902][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:36.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.904][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.905][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:36.906][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:36.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.909][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.910][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:36.911][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:36.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.914][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.915][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:36.916][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:36.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.919][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.920][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:36.921][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:36.922][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:36.924][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:36.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.926][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.927][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.929][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.931][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.932][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:36.934][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:36.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.936][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.937][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:36.938][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:36.940][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.941][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.942][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:36.943][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:36.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.946][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.947][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:36.948][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:36.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.951][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.952][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:36.953][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:36.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.955][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.957][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:36.958][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:36.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.960][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.962][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:36.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:36.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:36.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:36.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:36.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:36.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:36.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:36.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.993][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:36.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:36.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:36.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:36.998][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:36.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.003][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.008][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.013][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.018][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.023][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.028][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.033][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.054][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.058][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.063][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.069][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.073][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.078][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.089][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2024-10-12 16:04:37.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:37.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:37.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:37.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:37.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:37.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:37.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:37.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.139][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.144][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.149][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.154][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.158][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.163][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.178][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.183][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.188][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.193][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.198][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:37.199][private$selectFields]
biodb.TRACE[2024-10-12 16:04:37.200][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:37.201][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:37.203][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:37.204][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.205][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.208][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.209][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.210][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.213][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.214][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.215][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.218][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.219][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.220][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.223][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.224][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.225][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.228][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.229][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.230][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.233][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.234][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.235][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.238][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.239][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.240][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.243][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.244][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.246][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.248][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.249][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.251][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.253][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.254][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.256][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.258][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.260][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.261][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.263][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.265][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.266][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.268][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.270][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.271][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.273][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.275][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.276][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.278][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.280][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.281][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.284][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.285][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:37.286][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:37.287][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.289][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.291][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.292][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.294][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.296][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.298][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.299][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.301][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.302][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.304][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.306][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.307][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.309][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.311][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.312][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.314][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.316][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.317][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.318][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.321][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.322][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.323][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.326][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.327][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:37.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.358][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.363][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.368][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.373][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.378][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.383][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.388][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.393][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.398][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.418][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.423][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.428][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.434][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.439][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.444][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.454][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000002, 137783, N-(3S-hydroxydecanoyl)-L-serine, C13H25NO5, LMFA00000002, ...].
biodb.DEBUG[2024-10-12 16:04:37.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:37.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:37.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:37.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:37.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:37.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:37.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:37.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.488][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.493][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.509][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.514][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.519][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.524][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.539][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.543][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.548][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.553][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.558][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:37.559][private$selectFields]
biodb.TRACE[2024-10-12 16:04:37.560][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:37.561][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:37.563][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:37.564][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.565][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.568][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.569][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.570][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.572][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.574][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.575][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.576][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.577][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.578][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.580][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.582][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.583][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.585][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.587][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.588][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.589][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.592][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.593][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.594][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.596][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.598][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.599][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.601][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.603][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.604][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.606][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.607][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.609][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:37.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.611][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.612][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.614][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.616][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.617][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.618][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.621][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.622][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.623][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.625][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.627][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.628][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.630][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.632][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.633][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.636][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.637][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.638][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.640][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.642][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:37.643][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:37.644][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.645][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.648][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.649][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.650][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.653][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.654][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.655][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.658][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.659][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.660][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.662][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.664][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.665][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.667][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.668][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.670][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.672][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.673][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.675][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.677][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.678][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:37.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:37.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:37.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.695][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.700][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.704][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:37.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.710][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.715][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.720][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:37.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:37.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.725][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.730][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.735][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:37.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:37.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.759][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.764][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:37.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:37.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.769][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.774][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.779][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:37.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:37.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:37.788][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2024-10-12 16:04:37.789][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:37.790][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:37.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:37.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:37.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:37.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:37.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:37.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:37.811][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.DEBUG[2024-10-12 16:04:37.815][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[2024-10-12 16:04:37.820][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:37.821][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2024-10-12 16:04:37.823][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:37.854][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2024-10-12 16:04:38.903][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:38.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:38.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:38.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:38.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:38.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:38.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:38.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:38.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:38.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:38.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:38.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:38.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:38.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:38.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:38.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:38.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.938][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:38.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:38.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.943][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:38.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:38.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.948][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:38.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:38.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.952][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:38.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:38.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.957][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:38.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:38.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.962][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:38.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:38.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:38.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:38.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:38.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:38.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.977][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:38.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:38.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.982][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:38.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:38.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.987][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:38.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:38.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.992][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:38.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:38.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:38.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:38.997][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:38.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.002][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.007][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:39.008][private$selectFields]
biodb.TRACE[2024-10-12 16:04:39.009][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:39.011][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:39.012][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:39.013][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.014][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.017][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.018][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.019][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.020][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.021][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.023][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.024][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.026][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.027][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.029][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.031][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.032][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.034][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.035][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.036][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.037][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.039][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.041][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.042][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.044][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.046][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.048][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.049][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.051][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.053][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.054][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.056][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.057][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.059][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.061][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.062][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.064][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.065][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.066][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.067][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.069][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.071][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.072][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.073][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.076][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.077][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.078][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.081][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.082][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.083][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.086][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.087][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.088][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.091][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.092][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.093][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.095][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.097][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.098][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.099][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.100][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.102][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:39.103][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:39.104][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.105][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.108][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.109][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.110][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.113][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.114][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.115][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.118][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.119][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.120][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.123][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.124][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.125][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.128][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.129][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.130][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.133][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.134][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.135][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.138][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.139][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.140][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.143][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.144][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:39.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.176][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.182][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.187][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.194][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.200][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.206][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.212][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.218][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.224][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.245][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.250][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.261][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.267][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.273][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.285][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2024-10-12 16:04:39.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:39.300][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:39.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:39.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:39.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:39.310][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:39.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:39.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.332][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.337][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.341][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.346][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.351][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.356][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.371][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.376][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.381][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.386][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.391][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.396][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.400][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:39.402][private$selectFields]
biodb.TRACE[2024-10-12 16:04:39.403][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:39.404][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:39.405][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:39.406][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.408][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.410][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.411][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.413][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.415][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.416][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.417][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.420][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.421][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.422][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.425][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.426][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.427][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.430][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.431][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.432][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.434][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.436][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.437][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.439][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.440][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.442][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.444][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.445][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.447][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.449][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.450][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.452][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.454][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.455][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.456][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.459][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.460][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.461][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.464][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.465][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.466][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.469][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.470][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.471][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.474][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.475][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.476][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.479][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.480][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.481][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.484][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.485][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.486][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.489][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.490][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.491][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.494][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.495][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:39.496][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:39.497][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.499][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.502][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.503][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.505][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.507][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.508][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.510][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.512][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.513][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.514][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.517][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.518][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.519][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.520][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.522][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.523][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.524][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.526][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.528][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.529][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.531][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.533][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.534][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.536][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.538][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:39.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.569][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.574][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.579][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.584][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.589][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.594][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.599][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.604][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.609][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.629][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.634][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.644][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.649][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.654][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.665][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000002, 137783, N-(3S-hydroxydecanoyl)-L-serine, C13H25NO5, LMFA00000002, ...].
biodb.DEBUG[2024-10-12 16:04:39.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:39.667][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:39.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:39.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:39.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:39.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:39.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:39.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.710][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.715][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.720][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.724][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.729][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.734][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.748][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.753][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.758][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.763][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.768][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.773][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.777][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:39.779][private$selectFields]
biodb.TRACE[2024-10-12 16:04:39.780][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:39.781][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:39.782][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:39.783][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.784][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.787][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.788][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.789][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.791][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.793][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.794][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.796][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.797][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.799][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.801][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.802][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.803][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.806][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.807][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.808][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.811][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.812][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.813][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.816][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.817][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.818][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.821][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.822][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.823][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.825][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.827][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.828][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.830][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.831][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.833][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:39.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.835][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.836][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.838][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.840][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.841][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.842][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.845][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.846][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.847][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.850][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.851][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.852][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.854][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.856][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.857][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.858][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.859][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.860][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.862][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.863][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.864][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.865][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.867][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:39.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.869][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.870][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:39.871][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:39.873][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.874][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.876][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.877][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.879][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.881][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.882][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.884][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.886][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.887][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.888][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.891][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.892][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.893][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.896][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.897][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.898][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.900][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.902][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.903][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:39.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.905][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.906][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:39.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:39.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:39.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.923][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.928][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.933][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:39.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.938][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.943][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.948][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:39.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:39.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.953][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.958][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.963][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:39.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:39.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.988][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.993][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:39.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:39.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:39.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:39.999][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:40.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:40.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:40.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:40.003][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:40.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:40.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:40.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:40.008][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:40.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:40.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:40.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:40.018][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2024-10-12 16:04:40.019][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:40.021][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:40.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:40.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:40.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:40.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:40.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:40.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:40.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:04:40.040][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:04:40.044][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:40.046][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2024-10-12 16:04:40.058][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:40.090][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2024-10-12 16:04:41.106][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:41.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:41.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:41.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:41.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:41.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:41.118][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:41.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:41.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.141][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.145][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.150][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.155][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.160][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.165][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.180][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.185][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.190][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.195][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.200][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.205][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.210][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:41.211][private$selectFields]
biodb.TRACE[2024-10-12 16:04:41.213][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:41.214][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:41.215][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:41.216][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.218][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.220][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.221][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.222][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.225][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.226][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.227][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.230][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.231][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.232][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.234][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.236][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.237][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.239][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.241][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.242][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.244][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.245][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.247][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.249][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.250][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.252][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.254][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.255][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.256][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.259][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.260][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.261][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.264][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.265][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.266][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.268][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.270][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.271][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.273][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.275][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.276][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.278][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.280][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.281][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.283][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.284][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.286][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.287][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.288][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.289][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.291][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.293][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.294][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.296][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.298][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.299][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.300][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.303][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.304][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:41.305][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:41.307][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.308][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.310][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.311][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.313][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.315][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.316][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.318][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.320][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.321][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.322][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.325][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.326][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.328][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.330][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.331][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.333][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.335][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.336][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.338][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.340][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.341][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.342][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.345][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.346][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:41.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.377][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.382][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.387][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.392][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.397][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.402][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.409][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.414][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.419][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.439][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.444][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.449][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.454][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.459][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.464][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.475][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2024-10-12 16:04:41.490][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:41.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:41.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:41.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:41.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:41.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:41.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:41.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.523][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.528][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.533][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.538][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.543][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.548][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.569][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.574][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.579][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.584][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.589][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.594][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:41.595][private$selectFields]
biodb.TRACE[2024-10-12 16:04:41.596][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:41.597][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:41.598][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:41.600][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.601][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.603][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.605][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.606][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.608][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.609][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.611][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.613][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.614][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.616][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.618][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.619][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.620][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.623][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.624][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.625][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.628][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.629][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.630][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.632][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.634][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.635][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.637][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.638][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.640][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.642][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.643][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.645][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.647][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.648][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.649][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.652][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.653][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.654][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.657][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.658][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.659][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.662][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.663][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.664][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.667][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.668][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.669][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.671][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.673][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.674][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.676][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.678][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.679][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.681][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.682][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.684][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.686][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.687][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:41.689][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:41.690][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.691][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.693][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.695][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.696][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.698][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.700][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.701][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.702][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.703][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.704][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.706][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.708][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.710][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.711][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.713][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.714][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.716][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.718][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.719][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.721][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.723][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.724][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.726][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.728][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.729][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:41.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.761][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.767][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.772][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.777][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.783][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.788][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.793][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.798][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.803][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.823][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.828][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.832][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.837][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.842][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.848][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.858][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000002, 137783, N-(3S-hydroxydecanoyl)-L-serine, C13H25NO5, LMFA00000002, ...].
biodb.DEBUG[2024-10-12 16:04:41.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:41.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:41.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:41.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:41.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:41.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:41.881][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:04:41.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.901][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.906][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.911][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.916][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.920][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.925][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:41.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.945][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:41.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:41.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.950][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.955][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:41.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.960][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.965][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:41.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.970][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:41.971][private$selectFields]
biodb.TRACE[2024-10-12 16:04:41.972][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:41.973][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:41.974][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:41.975][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:41.977][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:41.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.979][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.980][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.981][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:41.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.984][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.985][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.986][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:41.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.988][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.990][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:41.991][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:41.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.993][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.994][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.996][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:41.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:41.998][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:41.999][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:42.000][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:42.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.003][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.004][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:42.005][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:42.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.007][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.009][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:42.010][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:42.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.013][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.014][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:42.015][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:42.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.018][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.019][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:42.020][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:42.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.023][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.024][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:42.025][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:42.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.027][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.029][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:42.030][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:42.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.033][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.035][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:42.036][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:42.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.038][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.040][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:42.041][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:42.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.043][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.045][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:42.046][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:42.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.048][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.050][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:42.051][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:42.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.053][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.055][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:42.056][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:42.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.058][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.060][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:42.061][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:42.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.063][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.064][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:42.066][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:42.067][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:42.068][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:42.069][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.070][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.071][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:42.073][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:42.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.075][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.076][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:42.077][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:42.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.080][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.081][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:42.082][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:42.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.084][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.086][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:42.087][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:42.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.089][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.090][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:42.092][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:42.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.094][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.095][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:42.096][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:42.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.099][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.100][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:42.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:42.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:42.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:42.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:42.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:42.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:42.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.116][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:42.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:42.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.121][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:42.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:42.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.126][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:42.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:42.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.131][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:42.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:42.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.136][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:42.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:42.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.141][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:42.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:42.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.146][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:42.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:42.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.151][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:42.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:42.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.156][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:42.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:42.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:42.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:42.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:42.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:42.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:42.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:42.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.177][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:42.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:42.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.182][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:42.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:42.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.187][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:42.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:42.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.192][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:42.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:42.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.198][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:42.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:42.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.203][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:42.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:42.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:42.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:42.212][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2024-10-12 16:04:42.213][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:42.215][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:04:42.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:42.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:42.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:42.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:42.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:42.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:42.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:04:42.236][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:04:42.240][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:04:42.252][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2024-10-12 16:04:42.254][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:04:42.285][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2024-10-12 16:04:43.300][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:04:43.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:43.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:43.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:43.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:43.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:43.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:43.314][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.TRACE[2024-10-12 16:04:43.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.335][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.339][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.344][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.349][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.354][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.359][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.373][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:43.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:43.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.378][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:43.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:43.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.383][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.388][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.393][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.398][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.403][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:43.404][private$selectFields]
biodb.TRACE[2024-10-12 16:04:43.405][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:43.407][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:43.408][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:43.409][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.410][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.413][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.414][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.415][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.418][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.419][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.420][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.421][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.422][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.424][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.425][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.427][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.428][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.430][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.432][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.433][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.435][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.437][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.438][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:43.440][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:43.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.442][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.443][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.445][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.447][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.448][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.450][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.452][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.453][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.454][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.457][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.458][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.459][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.462][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.463][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.464][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.467][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.468][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.469][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.472][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.473][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.474][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.477][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.478][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.479][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.481][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.483][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:43.484][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:43.485][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.486][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.488][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.489][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.491][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.492][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.494][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.496][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.497][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:43.499][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:43.500][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.501][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.502][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.503][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.505][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.506][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.508][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.510][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.511][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.513][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.514][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.516][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.517][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.518][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.519][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.521][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.523][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.524][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.526][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.528][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.529][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:43.530][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:43.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.533][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.534][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.535][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.538][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.539][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:43.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.571][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.576][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.581][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.586][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.591][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.596][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.602][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.607][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.612][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.632][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:43.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:43.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.637][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:43.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:43.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.643][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:43.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:43.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.648][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.653][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.658][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.680][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2024-10-12 16:04:43.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:43.683][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:43.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:43.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:43.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:43.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:43.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:04:43.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.716][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.721][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.726][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.731][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.736][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.741][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.756][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:43.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:43.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.761][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:43.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:43.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.766][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.771][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.776][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.781][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.785][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:43.787][private$selectFields]
biodb.TRACE[2024-10-12 16:04:43.788][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:43.789][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:43.790][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:43.791][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.793][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.795][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.796][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.798][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.800][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.802][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.803][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.805][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.807][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.808][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.810][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.812][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.813][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.815][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.817][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.818][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.820][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.822][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:43.823][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:43.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.827][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.828][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.829][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.832][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.833][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.834][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.836][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.838][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.839][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.841][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.842][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.844][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.846][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.847][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.848][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.851][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.852][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.853][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.856][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.857][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.858][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.861][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.862][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.863][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.865][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.867][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:43.868][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:43.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.870][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.871][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.873][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.875][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.876][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.877][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:43.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.880][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.881][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:43.882][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:43.883][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.885][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.887][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.888][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.893][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.894][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.895][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.898][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.899][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.900][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.903][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.904][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.905][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.907][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.911][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.912][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:43.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.915][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.916][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:43.917][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:43.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.919][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.921][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.922][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:43.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.924][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.925][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:43.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:43.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:43.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:43.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.959][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.964][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.969][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:43.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.974][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.979][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.984][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:43.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:43.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.989][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.994][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:43.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:43.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:43.999][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.019][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:44.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:44.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.024][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:44.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:44.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.029][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:44.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:44.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.034][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.038][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.043][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.053][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000002, 137783, N-(3S-hydroxydecanoyl)-L-serine, C13H25NO5, LMFA00000002, ...].
biodb.DEBUG[2024-10-12 16:04:44.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:04:44.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:44.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:44.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:44.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:44.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:44.077][FUN] Functions in observer BiodbConfig: [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[2024-10-12 16:04:44.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:44.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:44.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:44.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:44.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:44.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:44.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:44.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:44.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.099][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.104][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.109][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:44.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:44.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.114][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:44.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:44.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.119][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.124][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.139][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:44.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:44.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.143][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:44.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:44.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.148][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.153][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.158][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:44.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:44.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.163][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:44.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:44.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.168][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:44.169][private$selectFields]
biodb.TRACE[2024-10-12 16:04:44.170][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:04:44.171][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:04:44.173][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:04:44.174][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:44.175][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:44.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.178][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.179][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:44.180][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:44.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.182][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.184][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.185][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.186][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.187][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.188][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:44.190][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:44.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.192][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.193][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.195][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.197][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.198][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.200][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.202][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.203][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:44.204][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:44.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.207][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.208][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.209][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.212][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.213][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:44.214][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:44.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.216][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.218][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:44.219][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:44.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.221][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:04:44.224][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:04:44.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.226][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.227][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.229][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.231][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.232][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:44.234][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:44.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.236][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.237][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.238][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.241][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.242][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.243][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.246][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.247][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:44.248][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:44.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.251][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.252][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.253][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.255][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.257][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:04:44.258][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:04:44.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.260][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.262][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:44.263][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:04:44.264][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:44.265][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:44.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.268][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.269][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.270][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.272][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.274][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:44.275][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:44.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.277][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.279][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.280][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.282][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.283][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.285][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.287][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.288][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:44.290][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:44.291][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.292][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.293][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.294][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.296][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.297][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.298][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:04:44.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:44.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:44.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:44.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:44.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:04:44.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:04:44.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.315][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.320][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.325][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:04:44.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.330][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:44.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:44.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.335][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:44.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:44.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.340][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:04:44.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:04:44.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.345][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.350][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.355][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:04:44.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:04:44.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.376][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:44.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:44.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.381][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:44.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:44.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.386][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:04:44.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:04:44.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.391][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.396][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.401][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:04:44.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.411][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2024-10-12 16:04:44.412][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:04:44.413][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-10-12 16:04:44.421][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:04:44.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:04:44.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.426][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:04:44.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:04:44.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:04:44.431][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:04:44.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:04:44.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:04:44.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-10-12 16:04:44.451][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-10-12 16:04:44.453][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2024-10-12 16:04:44.454][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2024-10-12 16:04:44.455][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-10-12 16:04:44.456][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:04:44.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:04:44.459][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:04:44.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:04:44.461][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:04:44.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 371 ]
> 
> proc.time()
   user  system elapsed 
 65.963   4.920 138.075

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbLipidmaps_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.19-bioc-longtests/meat/biodbLipidmaps.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbLipidmaps/DESCRIPTION’ ... OK
* this is package ‘biodbLipidmaps’ version ‘1.10.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbLipidmaps’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code 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 whether startup messages can be suppressed ... 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 ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in ‘longtests’ ... OK
* checking tests in ‘longtests’ ...
  Running ‘testthat.R’
 OK
* DONE

Status: OK

Installation output

biodbLipidmaps.Rcheck/00install.out

* 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
Warning in fun(libname, pkgname) :
  Package 'biodbLipidmaps' is deprecated and will be removed from
  Bioconductor version 3.20
** testing if installed package can be loaded from final location
Warning in fun(libname, pkgname) :
  Package 'biodbLipidmaps' is deprecated and will be removed from
  Bioconductor version 3.20
** testing if installed package keeps a record of temporary installation path
* DONE (biodbLipidmaps)