Back to Long Tests report for BioC 3.17

This page was generated on 2023-10-14 21:30:02 -0400 (Sat, 14 Oct 2023).

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

Package 10/31HostnameOS / ArchCHECK
biodbLipidmaps 1.6.0  (landing page)
Pierrick Roger
Snapshot Date: 2023-10-14 09:55:02 -0400 (Sat, 14 Oct 2023)
git_url: https://git.bioconductor.org/packages/biodbLipidmaps
git_branch: RELEASE_3_17
git_last_commit: 3555696
git_last_commit_date: 2023-04-25 11:34:40 -0400 (Tue, 25 Apr 2023)
nebbiolo1Linux (Ubuntu 22.04.2 LTS) / x86_64  OK  
palomino3Windows Server 2022 Datacenter / x64  OK  
merida1macOS 12.6.4 Monterey / x86_64  OK  

CHECK results for biodbLipidmaps on nebbiolo1


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: 1.6.0
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbLipidmaps_1.6.0.tar.gz
StartedAt: 2023-10-14 11:07:17 -0400 (Sat, 14 Oct 2023)
EndedAt: 2023-10-14 11:11:10 -0400 (Sat, 14 Oct 2023)
EllapsedTime: 232.6 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbLipidmaps.Rcheck
Warnings: 0

Tests output

biodbLipidmaps.Rcheck/tests/testthat.Rout


R version 4.3.1 (2023-06-16) -- "Beagle Scouts"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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Type 'license()' or 'licence()' for distribution details.

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Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
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Type 'q()' to quit R.

> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbLipidmaps)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbLipidmaps")
biodb.INFO [2023-10-14 11:07:52.347][biodb::testContext]
biodb.INFO [2023-10-14 11:07:52.349][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-14 11:07:52.350][biodb::testContext] Test context - Generic long tests
biodb.INFO [2023-10-14 11:07:52.351][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-14 11:07:52.352][biodb::testContext]
biodb.INFO [2023-10-14 11:07:52.359][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-14 11:07:52.361][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-10-14 11:07:52.369][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-14 11:07:52.370][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-14 11:07:52.371][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-14 11:07:52.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.375][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-14 11:07:52.394][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-14 11:07:52.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.398][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-14 11:07:52.399][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-14 11:07:52.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.403][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-14 11:07:52.404][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-14 11:07:52.405][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-14 11:07:52.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.408][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-14 11:07:52.410][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-14 11:07:52.411][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-14 11:07:52.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.414][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-14 11:07:52.415][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-14 11:07:52.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.419][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-14 11:07:52.420][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-14 11:07:52.421][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-14 11:07:52.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.425][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-14 11:07:52.426][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-14 11:07:52.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.430][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-14 11:07:52.431][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-14 11:07:52.432][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-14 11:07:52.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.436][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-14 11:07:52.437][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-14 11:07:52.438][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-14 11:07:52.439][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-14 11:07:52.440][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-14 11:07:52.441][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-14 11:07:52.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.445][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-14 11:07:52.446][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-14 11:07:52.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.450][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-14 11:07:52.451][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-14 11:07:52.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.455][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-14 11:07:52.456][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-14 11:07:52.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.460][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-14 11:07:52.461][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-14 11:07:52.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.465][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-14 11:07:52.466][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-14 11:07:52.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.470][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-14 11:07:52.471][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-14 11:07:52.475][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-14 11:07:52.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.479][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-14 11:07:52.480][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-14 11:07:52.481][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-14 11:07:52.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.488][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-14 11:07:52.524][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-14 11:07:52.541][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-10-14 11:07:52.542][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.543][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-14 11:07:52.544][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.545][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-14 11:07:52.546][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-14 11:07:52.547][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-14 11:07:52.548][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-14 11:07:52.549][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-14 11:07:52.550][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.557][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-14 11:07:52.558][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-14 11:07:52.559][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:52.560][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.561][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-14 11:07:52.561][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-14 11:07:52.561][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-14 11:07:52.561][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-14 11:07:52.561][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-14 11:07:52.562][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-14 11:07:52.562][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-14 11:07:52.563][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-14 11:07:52.564][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-14 11:07:52.565][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-14 11:07:52.566][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-14 11:07:52.567][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-14 11:07:52.568][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:52.569][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-14 11:07:52.569][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-14 11:07:52.570][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-14 11:07:52.571][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:52.572][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-14 11:07:52.574][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-14 11:07:52.575][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-14 11:07:52.576][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.577][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-14 11:07:52.578][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.578][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-14 11:07:52.579][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-14 11:07:52.580][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-14 11:07:52.581][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-14 11:07:52.582][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-14 11:07:52.583][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.584][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-14 11:07:52.585][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-14 11:07:52.586][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:52.587][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.588][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-14 11:07:52.588][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-14 11:07:52.588][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-14 11:07:52.588][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-14 11:07:52.588][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-14 11:07:52.589][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-14 11:07:52.589][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-14 11:07:52.590][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-14 11:07:52.591][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-14 11:07:52.592][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-14 11:07:52.593][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-14 11:07:52.594][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-14 11:07:52.595][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:52.596][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-14 11:07:52.596][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-14 11:07:52.597][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-14 11:07:52.598][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:52.599][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-14 11:07:52.601][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.602][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-10-14 11:07:52.603][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.604][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-14 11:07:52.605][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.606][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-14 11:07:52.606][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-14 11:07:52.607][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-14 11:07:52.608][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-14 11:07:52.609][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-14 11:07:52.610][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-14 11:07:52.611][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-14 11:07:52.612][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-14 11:07:52.613][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:52.614][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.615][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:52.616][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-14 11:07:52.617][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-14 11:07:52.617][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-14 11:07:52.618][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-14 11:07:52.619][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-14 11:07:52.620][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-14 11:07:52.621][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-14 11:07:52.622][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:52.623][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-14 11:07:52.624][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-14 11:07:52.624][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-14 11:07:52.625][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:52.626][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-14 11:07:52.628][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.629][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-14 11:07:52.630][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.631][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-14 11:07:52.632][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.633][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-14 11:07:52.634][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-14 11:07:52.634][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-14 11:07:52.635][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-14 11:07:52.636][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-14 11:07:52.637][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-14 11:07:52.638][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-14 11:07:52.639][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-14 11:07:52.640][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:52.641][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:52.642][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:52.643][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-14 11:07:52.644][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-14 11:07:52.645][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-14 11:07:52.645][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-14 11:07:52.646][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-14 11:07:52.647][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-14 11:07:52.648][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-14 11:07:52.649][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:52.650][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-14 11:07:52.651][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-14 11:07:52.652][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-14 11:07:52.652][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:52.656][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-14 11:07:52.657][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.691][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.DEBUG[2023-10-14 11:07:52.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.695][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.DEBUG[2023-10-14 11:07:52.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.736][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-14 11:07:52.742][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-14 11:07:52.744][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-14 11:07:52.745][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-14 11:07:52.747][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-14 11:07:52.748][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-14 11:07:52.749][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-14 11:07:52.751][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-14 11:07:52.752][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-14 11:07:52.754][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-14 11:07:52.755][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-14 11:07:52.757][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-14 11:07:52.758][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-14 11:07:52.759][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-14 11:07:52.761][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-14 11:07:52.762][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-14 11:07:52.764][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-14 11:07:52.765][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-14 11:07:52.766][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-14 11:07:52.768][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-14 11:07:52.769][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-14 11:07:52.771][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-14 11:07:52.772][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-14 11:07:52.773][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-14 11:07:52.775][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-14 11:07:52.776][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-14 11:07:52.778][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-14 11:07:52.779][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-14 11:07:52.780][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-14 11:07:52.782][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-14 11:07:52.783][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-14 11:07:52.785][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-14 11:07:52.786][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-14 11:07:52.787][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-14 11:07:52.789][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-14 11:07:52.790][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-14 11:07:52.791][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-14 11:07:52.793][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-14 11:07:52.794][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-14 11:07:52.796][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-14 11:07:52.797][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-14 11:07:52.798][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-14 11:07:52.800][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-14 11:07:52.801][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-14 11:07:52.803][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-14 11:07:52.804][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-14 11:07:52.806][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-14 11:07:52.807][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-14 11:07:52.808][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-14 11:07:52.810][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-14 11:07:52.811][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-14 11:07:52.813][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-14 11:07:52.827][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-14 11:07:52.828][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-14 11:07:52.830][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-14 11:07:52.831][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-14 11:07:52.832][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-14 11:07:52.834][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-14 11:07:52.835][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-14 11:07:52.837][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-14 11:07:52.838][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-14 11:07:52.839][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-14 11:07:52.841][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-14 11:07:52.842][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-14 11:07:52.844][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-14 11:07:52.845][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-14 11:07:52.847][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-14 11:07:52.848][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-14 11:07:52.849][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-14 11:07:52.851][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-14 11:07:52.852][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-14 11:07:52.853][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-14 11:07:52.855][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-14 11:07:52.856][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-14 11:07:52.858][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-14 11:07:52.859][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-14 11:07:52.860][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-14 11:07:52.862][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-14 11:07:52.863][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-14 11:07:52.865][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-14 11:07:52.866][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-14 11:07:52.868][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-14 11:07:52.869][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-14 11:07:52.875][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-14 11:07:52.877][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-14 11:07:52.880][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-14 11:07:52.881][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.883][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.884][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.DEBUG[2023-10-14 11:07:52.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.938][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[2023-10-14 11:07:52.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.944][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[2023-10-14 11:07:52.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-14 11:07:52.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:52.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:52.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:52.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:52.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:52.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:52.995][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc-longtests/meat/biodbLipidmaps.Rcheck/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2023-10-14 11:07:53.003][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2023-10-14 11:07:53.005][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-14 11:07:53.006][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-14 11:07:53.007][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:53.008][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-14 11:07:53.008][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:53.009][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-14 11:07:53.010][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:53.011][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-14 11:07:53.012][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-14 11:07:53.013][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-14 11:07:53.014][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:53.015][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2023-10-14 11:07:53.016][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-14 11:07:53.017][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2023-10-14 11:07:53.017][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2023-10-14 11:07:53.017][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2023-10-14 11:07:53.017][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2023-10-14 11:07:53.017][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2023-10-14 11:07:53.017][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2023-10-14 11:07:53.017][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2023-10-14 11:07:53.017][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2023-10-14 11:07:53.017][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2023-10-14 11:07:53.018][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-14 11:07:53.019][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-14 11:07:53.019][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-14 11:07:53.020][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-14 11:07:53.021][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-14 11:07:53.022][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-14 11:07:53.022][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-14 11:07:53.023][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-14 11:07:53.024][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-14 11:07:53.025][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-14 11:07:53.026][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2023-10-14 11:07:53.026][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2023-10-14 11:07:53.027][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-14 11:07:53.028][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-14 11:07:53.029][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-14 11:07:53.030][self$setPropertyValue]
biodb.DEBUG[2023-10-14 11:07:53.035][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2023-10-14 11:07:53.036][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-14 11:07:53.059][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2023-10-14 11:07:53.060][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2023-10-14 11:07:53.065][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2023-10-14 11:07:53.069][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2023-10-14 11:07:53.073][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2023-10-14 11:07:53.074][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2023-10-14 11:07:53.075][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2023-10-14 11:07:53.076][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2023-10-14 11:07:53.086][biodb::testThat]
biodb.INFO [2023-10-14 11:07:53.086][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2023-10-14 11:07:53.087][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:07:53.088][biodb::testThat]
biodb.TRACE[2023-10-14 11:07:53.092][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.17-bioc-longtests/meat/biodbLipidmaps.Rcheck/biodbLipidmaps/testref/entry-lipidmaps.structure-LMFA00000001-content.tsv".
biodb.DEBUG[2023-10-14 11:07:53.100][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2023-10-14 11:07:53.103][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2023-10-14 11:07:53.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:07:53.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:53.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:53.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:53.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:53.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:53.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:07:53.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:53.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:53.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.160][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:53.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:53.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.164][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:53.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:53.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.168][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.193][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.197][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.201][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.205][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-14 11:07:53.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.208][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-14 11:07:53.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.212][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:53.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:53.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.216][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:53.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:53.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.220][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.223][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.227][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-14 11:07:53.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.231][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-10-14 11:07:53.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.235][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.238][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.242][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-14 11:07:53.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.260][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.264][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.296][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.309][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.313][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.317][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.324][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:07:53.350][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA00000001.
biodb.TRACE[2023-10-14 11:07:53.352][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-14 11:07:53.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-14 11:07:53.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.356][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-14 11:07:53.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-14 11:07:53.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.360][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-14 11:07:53.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-14 11:07:53.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.363][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-14 11:07:53.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-14 11:07:53.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.396][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.428][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.432][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.436][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.458][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.459][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.459][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.460][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.473][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.476][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.480][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.484][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.485][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.486][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.487][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.488][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.499][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.502][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.506][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.510][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.511][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.512][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.513][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.513][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.529][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:53.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:53.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.533][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:53.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:53.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.537][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:53.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:53.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.540][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:53.541][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:53.542][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.543][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.544][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:53.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:53.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.566][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.567][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.568][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.569][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.581][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.585][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.589][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.593][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.594][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.595][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.595][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.596][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.608][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.609][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.610][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.610][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.615][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.616][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.617][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.618][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.623][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:53.624][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:53.625][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.626][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.631][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.632][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.633][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.634][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.639][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.640][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.640][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.641][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.646][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.647][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.648][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.649][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.665][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.17-bioc-longtests/meat/biodbLipidmaps.Rcheck/biodbLipidmaps/testref/entry-lipidmaps.structure-LMFA00000002-content.tsv".
biodb.DEBUG[2023-10-14 11:07:53.696][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2023-10-14 11:07:53.697][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2023-10-14 11:07:53.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:07:53.700][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:53.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:53.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:53.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:53.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:53.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:07:53.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:53.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:53.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:53.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:53.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.747][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:53.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:53.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.750][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:53.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:53.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.754][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.758][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:53.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.762][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.766][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:53.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.770][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-14 11:07:53.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.773][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-14 11:07:53.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:53.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.777][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:53.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:53.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.781][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:53.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:53.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.785][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.789][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.792][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-14 11:07:53.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.796][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-10-14 11:07:53.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.804][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.807][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-14 11:07:53.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.811][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.815][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.822][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:07:53.849][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA00000002.
biodb.TRACE[2023-10-14 11:07:53.867][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-14 11:07:53.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-14 11:07:53.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.871][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-14 11:07:53.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-14 11:07:53.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.875][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-14 11:07:53.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-14 11:07:53.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.879][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-14 11:07:53.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-14 11:07:53.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.891][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.923][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.927][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.931][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:53.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.964][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.965][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.966][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.967][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:53.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:53.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.979][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.987][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.990][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.991][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.992][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.993][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:53.994][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:53.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:53.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:53.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.005][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.009][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.013][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.016][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.017][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.018][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.019][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.020][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.031][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.035][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.038][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.042][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.043][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.044][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.045][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.046][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.068][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.069][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.070][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.071][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.094][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.095][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.096][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.097][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.109][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.112][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.116][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.120][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.121][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.122][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.122][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.123][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.135][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.140][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.141][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.141][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.146][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.147][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.148][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.149][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.154][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.155][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.156][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.157][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.162][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.163][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.164][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.165][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.170][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.171][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.172][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.172][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.177][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.178][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.179][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.180][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.185][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.186][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.187][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.188][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.193][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.17-bioc-longtests/meat/biodbLipidmaps.Rcheck/biodbLipidmaps/testref/entry-lipidmaps.structure-LMFA08040013-content.tsv".
biodb.DEBUG[2023-10-14 11:07:54.194][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2023-10-14 11:07:54.195][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2023-10-14 11:07:54.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:07:54.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:54.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:54.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:54.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:54.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:54.206][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[2023-10-14 11:07:54.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.225][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.229][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.233][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.237][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.240][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.244][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.248][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.252][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.255][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-14 11:07:54.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.259][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-14 11:07:54.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.263][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.267][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.271][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.274][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.278][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-14 11:07:54.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.282][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-10-14 11:07:54.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.286][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.289][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.293][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-14 11:07:54.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.297][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.304][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.308][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.312][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.315][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.319][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.327][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:07:54.357][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA08040013.
biodb.TRACE[2023-10-14 11:07:54.358][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-14 11:07:54.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-14 11:07:54.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.362][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-14 11:07:54.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-14 11:07:54.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.366][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-14 11:07:54.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-14 11:07:54.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.369][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-14 11:07:54.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-14 11:07:54.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.382][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.414][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.417][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.421][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.441][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.442][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.443][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.444][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.460][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.467][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.468][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.469][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.470][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.471][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.482][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.486][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.490][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.493][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.494][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.495][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.496][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.497][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.508][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.512][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.516][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.519][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.520][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.521][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.522][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.523][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.534][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.538][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.542][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.545][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.546][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.547][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.548][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.549][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.576][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.577][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.577][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.578][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.591][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.595][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.598][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.602][ef$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.603][ef$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.604][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.605][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.606][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.617][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.621][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.625][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.629][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.630][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.630][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.631][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.632][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.655][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.656][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.656][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.657][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.670][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.671][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.671][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.672][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.677][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.678][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.679][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.680][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.685][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.686][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.687][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.688][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.693][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.694][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.695][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.696][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.701][ef$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.702][ef$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.703][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.703][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.708][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.709][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.710][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.711][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.716][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.717][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.718][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.719][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.724][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.725][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.726][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.727][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.732][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.733][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.733][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.734][ef$get] fields variable is a list.
biodb.INFO [2023-10-14 11:07:54.743][biodb::testThat]
biodb.INFO [2023-10-14 11:07:54.744][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-10-14 11:07:54.745][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:07:54.746][biodb::testThat]
biodb.DEBUG[2023-10-14 11:07:54.748][private$loadEntries] Creating entries from ids [3]: "LMFA00000001, LMFA00000002, LMFA08040013".
biodb.DEBUG[2023-10-14 11:07:54.759][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 3 id(s)...
biodb.TRACE[2023-10-14 11:07:54.764][cch$loadFileContent] Trying to load 3 files from cache: [3]: "LMFA00000001, LMFA00000002, LMFA08040013".
biodb.TRACE[2023-10-14 11:07:54.765][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2023-10-14 11:07:54.767][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000001.tsv, /home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000002.tsv, /home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA08040013.tsv".
biodb.DEBUG[2023-10-14 11:07:54.768][conn$getEntryContent] 3 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2023-10-14 11:07:54.769][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 3 content(s).
biodb.DEBUG[2023-10-14 11:07:54.770][self$createEntryFromContent] Parsing 3 LIPID MAPS Structure entries.
biodb.DEBUG[2023-10-14 11:07:54.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:07:54.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:54.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:54.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:54.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:54.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:54.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:07:54.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.801][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.804][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.808][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.812][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.816][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.819][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.823][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-14 11:07:54.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.827][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-14 11:07:54.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.831][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.835][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.838][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.842][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.846][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-14 11:07:54.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.850][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-10-14 11:07:54.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.853][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.857][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.861][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-14 11:07:54.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.865][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.868][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.872][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.879][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.883][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.887][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.894][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:54.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:07:54.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:07:54.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:54.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:54.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:54.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:54.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:54.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:07:54.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:54.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:54.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:54.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.938][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:54.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.942][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:54.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.945][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.949][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:54.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.953][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.957][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:54.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.961][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-14 11:07:54.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.964][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-14 11:07:54.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:54.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.972][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.976][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:54.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:54.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.980][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.984][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.987][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-14 11:07:54.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.991][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-10-14 11:07:54.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.995][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:54.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:54.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:54.998][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:54.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.002][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-14 11:07:55.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.006][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:55.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:55.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.010][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:55.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:55.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.017][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:55.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:55.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:07:55.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:07:55.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:55.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:55.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:55.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:55.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:55.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:07:55.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:55.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:55.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:07:55.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:07:55.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.061][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:55.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:55.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.065][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:55.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:07:55.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.069][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:55.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:55.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.073][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:55.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:07:55.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.076][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:55.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:55.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.080][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:55.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:07:55.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.084][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:55.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:55.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.088][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:55.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:07:55.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.092][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-14 11:07:55.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:55.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.095][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-14 11:07:55.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:55.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.099][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:55.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:55.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.103][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:07:55.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:07:55.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.107][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.110][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.114][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-14 11:07:55.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.118][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-10-14 11:07:55.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.122][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.125][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.129][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-14 11:07:55.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.133][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.137][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.140][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.144][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.152][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:55.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:55.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.155][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:55.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:55.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.163][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:55.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:07:55.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:07:55.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:07:55.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:07:55.216][self$createEntryFromContent] Accession numbers: LMFA00000001, LMFA00000002, LMFA08040013.
biodb.TRACE[2023-10-14 11:07:55.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-10-14 11:07:55.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-10-14 11:07:55.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-10-14 11:07:55.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-10-14 11:07:55.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-10-14 11:07:55.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-10-14 11:07:55.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-10-14 11:07:55.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-10-14 11:07:55.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-10-14 11:07:55.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-10-14 11:07:55.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-10-14 11:07:55.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-10-14 11:07:55.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-10-14 11:07:55.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-10-14 11:07:55.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-10-14 11:07:55.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-10-14 11:07:55.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-10-14 11:07:55.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-10-14 11:07:55.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-14 11:07:55.268][biodb::testThat]
biodb.INFO [2023-10-14 11:07:55.269][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2023-10-14 11:07:55.269][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:07:55.270][biodb::testThat]
biodb.TRACE[2023-10-14 11:07:55.273][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.274][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.275][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.276][ef$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:07:55.277][function(conn, opt)] Testing searchForEntries() with entry "LMFA00000001" and field "name".
biodb.TRACE[2023-10-14 11:07:55.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.306][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.310][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:07:55.316][function(conn, opt)] With value "2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2023-10-14 11:07:55.321][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2023-10-14 11:07:55.339][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:07:55.353][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2023-10-14 11:07:55.354][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:07:55.356][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.DEBUG[2023-10-14 11:07:55.357][function(conn, opt)] With found IDs [1]: "LMFA00000001".
biodb.TRACE[2023-10-14 11:07:55.375][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:55.376][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:55.377][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.378][ef$get] fields variable is a list.
biodb.INFO [2023-10-14 11:07:55.382][biodb::testThat]
biodb.INFO [2023-10-14 11:07:55.383][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2023-10-14 11:07:55.384][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:07:55.385][biodb::testThat]
biodb.TRACE[2023-10-14 11:07:55.408][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.412][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.416][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:55.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:55.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:07:55.513][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2023-10-14 11:07:55.516][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:07:55.517][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2023-10-14 11:07:55.518][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:07:55.520][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.INFO [2023-10-14 11:07:55.542][biodb::testThat]
biodb.INFO [2023-10-14 11:07:55.543][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2023-10-14 11:07:55.544][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:07:55.545][biodb::testThat]
biodb.TRACE[2023-10-14 11:07:55.554][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-14 11:07:55.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-14 11:07:55.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.558][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-14 11:07:55.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-14 11:07:55.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.562][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-14 11:07:55.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-14 11:07:55.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.565][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-14 11:07:55.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-14 11:07:55.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.597][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-14 11:07:55.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-14 11:07:55.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.601][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-14 11:07:55.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-14 11:07:55.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.605][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-14 11:07:55.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-14 11:07:55.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:55.609][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-14 11:07:55.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-14 11:07:55.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:55.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-14 11:07:55.618][biodb::testThat]
biodb.INFO [2023-10-14 11:07:55.619][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-10-14 11:07:55.620][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:07:55.620][biodb::testThat]
biodb.INFO [2023-10-14 11:07:55.629][biodb::testThat]
biodb.INFO [2023-10-14 11:07:55.630][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-10-14 11:07:55.631][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:07:55.632][biodb::testThat]
biodb.INFO [2023-10-14 11:07:55.639][biodb::testThat]
biodb.INFO [2023-10-14 11:07:55.640][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2023-10-14 11:07:55.641][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:07:55.642][biodb::testThat]
biodb.DEBUG[2023-10-14 11:07:55.645][function(conn, opt)] Trying to download "https://www.lipidmaps.org/data?LMID=LMFA00000001".
biodb.DEBUG[2023-10-14 11:07:57.242][getUrlContent] Use RCurl for downloading content of URL https://www.lipidmaps.org/data?LMID=LMFA00000001.
biodb.INFO [2023-10-14 11:07:58.129][biodb::testThat]
biodb.INFO [2023-10-14 11:07:58.131][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2023-10-14 11:07:58.133][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:07:58.135][biodb::testThat]
biodb.TRACE[2023-10-14 11:07:58.148][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:58.150][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:58.151][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:58.153][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:58.155][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:58.156][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:58.158][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:58.159][ef$get] fields variable is a list.
biodb.INFO [2023-10-14 11:07:58.162][biodb::testThat]
biodb.INFO [2023-10-14 11:07:58.163][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2023-10-14 11:07:58.164][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:07:58.166][biodb::testThat]
biodb.TRACE[2023-10-14 11:07:58.180][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:58.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:58.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:58.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:58.185][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:58.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:58.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:58.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:58.189][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:07:58.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:07:58.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:58.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:07:58.265][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2023-10-14 11:07:58.268][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:07:58.269][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2023-10-14 11:07:58.270][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:07:58.271][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.DEBUG[2023-10-14 11:07:58.334][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2023-10-14 11:07:58.337][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:07:58.339][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2023-10-14 11:07:58.340][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:07:58.341][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.TRACE[2023-10-14 11:07:58.356][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:07:58.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:07:58.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:58.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:58.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:07:58.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:07:58.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:58.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:58.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:58.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:58.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:58.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:58.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:58.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:58.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:58.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:58.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:58.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:58.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:58.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:58.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:58.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:58.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:58.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:58.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:58.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:58.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:58.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:07:58.398][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.DEBUG[2023-10-14 11:07:58.401][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:07:58.402][cch$loadFileContent] Trying to load 1 files from cache: [1]: "304383a7dc8c451be84009e31d831359".
biodb.TRACE[2023-10-14 11:07:58.404][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:07:58.460][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/304383a7dc8c451be84009e31d831359.content".
biodb.DEBUG[2023-10-14 11:07:59.505][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.DEBUG[2023-10-14 11:07:59.509][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:07:59.510][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7f71825f1888a7b29e4b8407502d21e3".
biodb.TRACE[2023-10-14 11:07:59.512][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:07:59.513][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/7f71825f1888a7b29e4b8407502d21e3.content".
biodb.DEBUG[2023-10-14 11:07:59.537][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride&ExactMass=626.491026&ExactMassOffSet=2e-06".
biodb.DEBUG[2023-10-14 11:07:59.541][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:07:59.542][cch$loadFileContent] Trying to load 1 files from cache: [1]: "fd41c675dd237f33cdaafcbb15058c54".
biodb.TRACE[2023-10-14 11:07:59.543][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:07:59.545][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/fd41c675dd237f33cdaafcbb15058c54.content".
biodb.TRACE[2023-10-14 11:07:59.564][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:07:59.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:07:59.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-14 11:07:59.576][biodb::testThat]
biodb.INFO [2023-10-14 11:07:59.577][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2023-10-14 11:07:59.578][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:07:59.579][biodb::testThat]
biodb.TRACE[2023-10-14 11:07:59.583][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:07:59.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:07:59.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.587][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:07:59.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:07:59.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.590][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:07:59.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:07:59.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:07:59.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:07:59.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:07:59.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:07:59.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:07:59.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:07:59.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:07:59.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:07:59.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:07:59.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:07:59.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:07:59.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:07:59.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:07:59.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:07:59.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:07:59.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:07:59.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:07:59.677][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2023-10-14 11:07:59.680][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:07:59.681][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2023-10-14 11:07:59.683][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:07:59.734][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2023-10-14 11:08:00.542][private$loadEntries] Creating entries from ids [1]: "LMFA00000003".
biodb.DEBUG[2023-10-14 11:08:00.582][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-14 11:08:00.584][cch$loadFileContent] Trying to load 1 files from cache: [1]: "LMFA00000003".
biodb.TRACE[2023-10-14 11:08:00.585][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:08:00.587][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000003.tsv".
biodb.DEBUG[2023-10-14 11:08:00.588][conn$getEntryContent] 1 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2023-10-14 11:08:00.589][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2023-10-14 11:08:00.590][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2023-10-14 11:08:00.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:00.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:00.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:00.599][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:00.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:00.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:00.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:00.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:08:00.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:08:00.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:08:00.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:08:00.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:08:00.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:08:00.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.616][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:08:00.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-14 11:08:00.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.620][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:08:00.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-14 11:08:00.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.623][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:08:00.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:08:00.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.627][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:08:00.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:08:00.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.631][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:08:00.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:08:00.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.635][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:08:00.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:08:00.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.638][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-14 11:08:00.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:00.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.642][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-14 11:08:00.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:00.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.646][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:08:00.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:08:00.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.650][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:08:00.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:08:00.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.654][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:08:00.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:08:00.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.657][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:08:00.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:08:00.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.661][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-14 11:08:00.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:08:00.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.665][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-10-14 11:08:00.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:08:00.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.682][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:08:00.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:08:00.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.685][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:08:00.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:08:00.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.689][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-14 11:08:00.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:08:00.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.693][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.696][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:08:00.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:08:00.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.704][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:08:00.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:08:00.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:08:00.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:08:00.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:08:00.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:08:00.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:08:00.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:08:00.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:08:00.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:08:00.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:08:00.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:08:00.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:08:00.729][self$createEntryFromContent] Accession numbers: LMFA00000003.
biodb.DEBUG[2023-10-14 11:08:00.738][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:08:00.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:00.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:00.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:00.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:00.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:00.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:00.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:00.750][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.753][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.757][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:00.758][private$selectFields]
biodb.TRACE[2023-10-14 11:08:00.759][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:00.760][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:00.760][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:00.761][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.762][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.763][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.764][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.765][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.766][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.767][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.768][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.769][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:00.769][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:00.770][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.771][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.772][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.773][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.774][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:00.775][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.779][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.782][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.794][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:08:00.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:00.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:00.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:00.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:00.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:00.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:00.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:00.806][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.809][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.813][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:00.814][private$selectFields]
biodb.TRACE[2023-10-14 11:08:00.825][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:00.826][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:00.827][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:00.828][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.829][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.830][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.831][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.832][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.833][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.834][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.835][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.835][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:00.836][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:00.837][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.838][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.839][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.840][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.841][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:00.842][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.845][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.849][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.853][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:08:00.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:00.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:00.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:00.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:00.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:00.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:00.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:00.865][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.868][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.872][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:00.873][private$selectFields]
biodb.TRACE[2023-10-14 11:08:00.874][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:00.874][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:00.875][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:00.876][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.877][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.878][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.879][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.880][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.881][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.882][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.882][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.883][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:00.884][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:00.885][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.886][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.887][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.888][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.889][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:00.890][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.893][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.897][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:00.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:00.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:00.901][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:08:00.902][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:08:00.903][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:08:00.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:00.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:00.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:00.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:00.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:00.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:00.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:08:00.918][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[2023-10-14 11:08:00.921][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-14 11:08:00.922][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-14 11:08:00.923][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.TRACE[2023-10-14 11:08:05.380][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01).
biodb.DEBUG[2023-10-14 11:08:16.725][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-14 11:08:16.727][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content"
biodb.TRACE[2023-10-14 11:08:16.745][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.request"
biodb.DEBUG[2023-10-14 11:08:17.567][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:08:17.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:17.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:17.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:17.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:17.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:17.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:17.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:17.608][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.612][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.633][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:17.634][private$selectFields]
biodb.TRACE[2023-10-14 11:08:17.635][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:17.636][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:17.637][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:17.638][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.639][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.640][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.641][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.642][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.643][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.644][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.644][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.645][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:17.676][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:17.677][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.678][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.679][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.680][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.681][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:17.682][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.685][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.689][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.693][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:08:17.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:17.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:17.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:17.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:17.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:17.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:17.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:17.705][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.708][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.712][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:17.713][private$selectFields]
biodb.TRACE[2023-10-14 11:08:17.714][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:17.715][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:17.715][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:17.716][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.717][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.718][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.719][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.720][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.721][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.722][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.723][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.724][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:17.724][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:17.725][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.726][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.727][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.728][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.729][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:17.730][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.733][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.737][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.741][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:08:17.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:17.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:17.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:17.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:17.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:17.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:17.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:17.752][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.756][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.760][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:17.760][private$selectFields]
biodb.TRACE[2023-10-14 11:08:17.761][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:17.762][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:17.763][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:17.764][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.765][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.766][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.767][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.768][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.769][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.769][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.770][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.771][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:17.772][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:17.773][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.774][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.775][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.776][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.777][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:17.778][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.781][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.785][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:17.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:17.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:17.789][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:08:17.790][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:08:17.791][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:08:17.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:17.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:17.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:17.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:17.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:17.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:17.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:08:17.805][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.DEBUG[2023-10-14 11:08:17.839][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-14 11:08:17.840][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-14 11:08:17.853][private$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[2023-10-14 11:08:21.903][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[2023-10-14 11:08:33.002][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-14 11:08:33.005][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content"
biodb.TRACE[2023-10-14 11:08:33.014][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.request"
biodb.DEBUG[2023-10-14 11:08:33.811][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:08:33.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:33.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:33.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:33.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:33.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:33.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:33.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:33.825][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.829][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.834][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:33.835][private$selectFields]
biodb.TRACE[2023-10-14 11:08:33.836][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:33.836][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:33.837][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:33.838][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.840][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.840][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.841][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.842][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.843][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.844][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.845][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.846][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:33.847][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:33.848][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.849][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.850][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.851][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.852][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:33.853][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.857][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.861][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.866][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:08:33.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:33.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:33.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:33.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:33.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:33.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:33.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:33.878][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.882][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.886][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:33.887][private$selectFields]
biodb.TRACE[2023-10-14 11:08:33.888][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:33.889][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:33.890][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:33.891][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.892][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.893][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.893][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.894][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.896][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.896][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.897][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.898][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:33.899][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:33.900][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.901][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.902][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.903][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.904][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:33.905][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.909][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.913][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.918][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:08:33.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:33.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:33.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:33.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:33.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:33.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:33.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:33.930][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.934][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.938][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:33.939][private$selectFields]
biodb.TRACE[2023-10-14 11:08:33.940][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:33.941][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:33.942][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:33.943][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.944][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.945][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.946][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.947][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.948][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.949][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.950][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.951][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:33.952][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:33.953][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.954][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.955][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.956][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.957][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:33.958][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.976][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.980][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:33.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.984][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:08:33.985][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:08:33.986][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-14 11:08:33.994][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:08:33.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:08:33.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:33.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:33.998][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:08:33.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:08:34.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.002][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:08:34.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:08:34.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-14 11:08:34.009][biodb::testThat]
biodb.INFO [2023-10-14 11:08:34.010][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2023-10-14 11:08:34.011][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:08:34.012][biodb::testThat]
biodb.TRACE[2023-10-14 11:08:34.015][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:08:34.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:08:34.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.018][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:08:34.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:08:34.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.022][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:08:34.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:08:34.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:08:34.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:08:34.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:08:34.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:08:34.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:08:34.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:08:34.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:34.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:08:34.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:34.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:08:34.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:34.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:34.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:34.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:34.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:34.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:34.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:08:34.148][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.009397365375".
biodb.DEBUG[2023-10-14 11:08:34.151][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:08:34.153][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5652f5994fce967a05a065a71bac3ed6".
biodb.TRACE[2023-10-14 11:08:34.154][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:08:34.205][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/5652f5994fce967a05a065a71bac3ed6.content".
biodb.DEBUG[2023-10-14 11:08:34.995][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:08:34.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:34.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:34.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:35.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:35.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:35.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:35.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:35.008][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.011][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.015][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:35.016][private$selectFields]
biodb.TRACE[2023-10-14 11:08:35.017][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:35.018][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:35.019][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:35.020][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.021][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.022][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.022][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.023][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.024][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.025][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.026][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.027][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:35.028][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:35.029][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.030][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.031][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.032][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.032][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:35.033][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.037][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.041][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.045][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:08:35.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:35.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:35.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:35.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:35.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:35.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:35.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:35.056][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.060][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.063][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:35.064][private$selectFields]
biodb.TRACE[2023-10-14 11:08:35.065][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:35.066][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:35.067][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:35.068][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.069][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.070][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.070][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.071][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.072][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.073][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.074][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.075][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:35.076][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:35.077][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.078][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.079][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.080][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.080][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:35.081][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.085][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.089][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.093][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:08:35.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:35.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:35.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:35.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:35.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:35.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:35.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:35.105][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.108][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.112][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:35.113][private$selectFields]
biodb.TRACE[2023-10-14 11:08:35.114][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:35.115][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:35.116][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:35.117][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.118][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.119][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.119][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.120][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.121][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.122][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.123][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.124][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:35.125][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:35.126][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.127][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.128][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.129][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.130][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:35.131][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.144][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.148][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:35.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:35.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:35.152][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:08:35.153][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:08:35.154][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:08:35.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:35.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:35.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:35.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:35.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:35.164][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:35.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:08:35.168][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[2023-10-14 11:08:35.171][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-14 11:08:35.172][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-14 11:08:35.173][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.00412759911".
biodb.TRACE[2023-10-14 11:08:39.269][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.00412759911).
biodb.DEBUG[2023-10-14 11:08:50.341][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-14 11:08:50.343][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/caf6ace8482be3630c2e179e272c9f63.content"
biodb.TRACE[2023-10-14 11:08:50.351][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/caf6ace8482be3630c2e179e272c9f63.request"
biodb.DEBUG[2023-10-14 11:08:51.305][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:08:51.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:51.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:51.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:51.314][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:51.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:51.316][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:51.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:51.318][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.322][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.325][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:51.326][private$selectFields]
biodb.TRACE[2023-10-14 11:08:51.327][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:51.328][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:51.329][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:51.330][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.331][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.332][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.333][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.334][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.335][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.335][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.336][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.337][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:51.338][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:51.339][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.340][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.341][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.342][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.343][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:51.344][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.347][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.351][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.355][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:08:51.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:51.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:51.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:51.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:51.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:51.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:51.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:51.367][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.370][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.374][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:51.375][private$selectFields]
biodb.TRACE[2023-10-14 11:08:51.376][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:51.377][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:51.377][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:51.378][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.379][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.380][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.381][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.382][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.383][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.384][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.385][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.386][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:51.387][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:51.387][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.388][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.389][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.390][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.391][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:51.392][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.396][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.399][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.403][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:08:51.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:51.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:51.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:51.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:51.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:51.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:51.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:08:51.415][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.419][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.423][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:51.423][private$selectFields]
biodb.TRACE[2023-10-14 11:08:51.424][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:08:51.425][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:08:51.426][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:51.427][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.428][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.429][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.430][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.431][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.432][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.433][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.434][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.435][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:51.435][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:08:51.436][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.437][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.438][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.439][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.440][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:08:51.441][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.466][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.470][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:08:51.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:08:51.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:08:51.474][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:08:51.475][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:08:51.476][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:08:51.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:08:51.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:08:51.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:08:51.485][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:08:51.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:08:51.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:08:51.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:08:51.490][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.004489236435".
biodb.DEBUG[2023-10-14 11:08:51.493][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-14 11:08:51.494][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-14 11:08:51.496][private$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[2023-10-14 11:08:55.618][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[2023-10-14 11:09:06.302][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-14 11:09:06.304][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/8b6f4df3787f4a46fc24f669a9568b94.content"
biodb.TRACE[2023-10-14 11:09:06.312][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/8b6f4df3787f4a46fc24f669a9568b94.request"
biodb.DEBUG[2023-10-14 11:09:07.131][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:09:07.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:07.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:07.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:07.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:07.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:07.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:07.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:07.147][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.151][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.155][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:07.156][private$selectFields]
biodb.TRACE[2023-10-14 11:09:07.157][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:07.158][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:07.159][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:07.160][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.161][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.162][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.163][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.164][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.165][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.166][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.167][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.168][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:07.169][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:07.170][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.171][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.172][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.173][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.174][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:07.175][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.179][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.183][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.187][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:09:07.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:07.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:07.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:07.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:07.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:07.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:07.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:07.200][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.204][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.208][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:07.209][private$selectFields]
biodb.TRACE[2023-10-14 11:09:07.210][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:07.211][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:07.212][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:07.213][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.214][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.215][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.216][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.217][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.218][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.219][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.220][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.221][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:07.222][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:07.222][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.223][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.224][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.225][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.226][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:07.227][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.231][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.235][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.240][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:09:07.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:07.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:07.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:07.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:07.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:07.251][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:07.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:07.253][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.257][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.261][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:07.262][private$selectFields]
biodb.TRACE[2023-10-14 11:09:07.263][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:07.264][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:07.265][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:07.266][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.268][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.269][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.270][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.271][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.272][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.273][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.274][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.275][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:07.276][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:07.276][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.278][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.278][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.279][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.280][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:07.281][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.304][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.308][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:07.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.312][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:09:07.313][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:09:07.314][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-14 11:09:07.322][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:09:07.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:09:07.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.326][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:09:07.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:09:07.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.329][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:09:07.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:09:07.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-14 11:09:07.337][biodb::testThat]
biodb.INFO [2023-10-14 11:09:07.338][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2023-10-14 11:09:07.339][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:09:07.340][biodb::testThat]
biodb.TRACE[2023-10-14 11:09:07.343][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:09:07.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:09:07.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.346][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:09:07.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:09:07.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.350][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:09:07.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:09:07.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:09:07.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:09:07.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:09:07.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:09:07.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:09:07.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:09:07.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:07.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:07.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:07.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:09:07.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:07.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:07.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:07.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:07.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:07.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:07.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:09:07.424][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2023-10-14 11:09:07.427][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:09:07.428][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2023-10-14 11:09:07.429][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:09:07.478][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2023-10-14 11:09:08.265][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:09:08.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:08.268][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:08.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:08.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:08.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:08.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:08.290][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[2023-10-14 11:09:08.291][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.295][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.299][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:08.300][private$selectFields]
biodb.TRACE[2023-10-14 11:09:08.301][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:08.302][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:08.303][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:08.304][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.305][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.306][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.307][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.308][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.309][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.310][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.311][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.312][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:08.313][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:08.313][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.315][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.316][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.316][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.317][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:08.318][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.322][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.326][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.330][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:09:08.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:08.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:08.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:08.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:08.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:08.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:08.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:08.343][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.346][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.350][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:08.351][private$selectFields]
biodb.TRACE[2023-10-14 11:09:08.352][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:08.353][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:08.354][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:08.355][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.356][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.357][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.358][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.359][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.360][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.361][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.362][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.363][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:08.364][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:08.365][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.366][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.367][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.367][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.368][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:08.369][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.373][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.377][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.381][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:09:08.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:08.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:08.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:08.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:08.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:08.392][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:08.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:08.394][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.398][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.402][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:08.402][private$selectFields]
biodb.TRACE[2023-10-14 11:09:08.403][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:08.404][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:08.405][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:08.406][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.407][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.408][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.409][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.410][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.411][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.412][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.413][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.414][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:08.415][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:08.416][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.417][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.418][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.419][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.420][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:08.421][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.425][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.429][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:08.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:08.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:08.442][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:09:08.443][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:09:08.444][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:09:08.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:08.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:08.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:08.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:08.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:08.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:08.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:09:08.458][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[2023-10-14 11:09:08.461][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:09:08.463][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2023-10-14 11:09:08.464][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:09:08.511][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2023-10-14 11:09:09.286][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:09:09.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:09.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:09.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:09.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:09.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:09.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:09.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:09.299][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.302][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.306][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:09.307][private$selectFields]
biodb.TRACE[2023-10-14 11:09:09.308][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:09.309][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:09.310][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:09.311][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.312][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.312][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.313][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.314][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.315][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.316][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.317][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.318][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:09.319][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:09.320][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.321][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.321][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.322][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.323][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:09.324][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.328][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.331][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.335][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:09:09.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:09.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:09.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:09.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:09.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:09.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:09.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:09.347][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.350][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.354][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:09.355][private$selectFields]
biodb.TRACE[2023-10-14 11:09:09.356][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:09.357][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:09.358][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:09.359][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.360][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.360][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.361][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.362][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.363][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.364][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.365][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.366][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:09.367][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:09.368][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.369][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.370][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.370][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.371][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:09.372][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.376][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.380][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.384][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:09:09.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:09.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:09.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:09.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:09.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:09.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:09.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:09.407][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.411][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.414][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:09.415][private$selectFields]
biodb.TRACE[2023-10-14 11:09:09.416][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:09.417][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:09.418][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:09.419][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.420][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.421][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.421][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.422][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.423][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.424][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.425][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.426][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:09.427][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:09.428][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.429][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.430][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.430][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.431][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:09.432][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.436][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.440][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:09.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:09.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:09.444][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:09:09.444][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:09:09.445][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:09:09.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:09.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:09.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:09.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:09.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:09.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:09.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:09:09.459][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[2023-10-14 11:09:09.462][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:09:09.463][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2023-10-14 11:09:09.464][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:09:09.509][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2023-10-14 11:09:10.296][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:09:10.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:10.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:10.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:10.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:10.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:10.307][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:10.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:10.309][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.313][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.316][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:10.317][private$selectFields]
biodb.TRACE[2023-10-14 11:09:10.318][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:10.319][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:10.320][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:10.321][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.322][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.323][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.324][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.325][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.326][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.326][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.327][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.328][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:10.329][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:10.330][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.331][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.332][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.333][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.334][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:10.335][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.338][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.342][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.346][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:09:10.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:10.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:10.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:10.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:10.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:10.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:10.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:10.358][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.361][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.365][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:10.366][private$selectFields]
biodb.TRACE[2023-10-14 11:09:10.367][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:10.368][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:10.369][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:10.370][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.371][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.383][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.384][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.385][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.386][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.387][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.388][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.388][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:10.389][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:10.390][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.391][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.392][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.393][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.394][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:10.395][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.398][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.402][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.406][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:09:10.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:10.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:10.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:10.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:10.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:10.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:10.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:10.418][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.421][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.425][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:10.426][private$selectFields]
biodb.TRACE[2023-10-14 11:09:10.427][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:10.427][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:10.428][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:10.429][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.430][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.431][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.432][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.433][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.434][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.435][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.436][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.436][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:10.437][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:10.438][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.439][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.440][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.441][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.442][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:10.443][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.446][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.450][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:10.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.454][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:09:10.455][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:09:10.456][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-14 11:09:10.476][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:09:10.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:09:10.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.480][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:09:10.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:09:10.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.483][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:09:10.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:09:10.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.490][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:09:10.491][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:09:10.492][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.493][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.494][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.495][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.496][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.497][ef$get] fields variable is a list.
biodb.INFO [2023-10-14 11:09:10.498][biodb::testThat]
biodb.INFO [2023-10-14 11:09:10.499][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2023-10-14 11:09:10.500][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:09:10.501][biodb::testThat]
biodb.TRACE[2023-10-14 11:09:10.504][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:09:10.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:09:10.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.508][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:09:10.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:09:10.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.511][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:09:10.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:09:10.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:09:10.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:09:10.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:09:10.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:09:10.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:09:10.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:09:10.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:10.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:09:10.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:10.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:09:10.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:10.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:10.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:10.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:10.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:10.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:10.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:09:10.592][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[2023-10-14 11:09:10.595][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-14 11:09:10.596][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-14 11:09:10.598][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.391025&ExactMassOffSet=0.11".
biodb.TRACE[2023-10-14 11:09:14.672][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.391025&ExactMassOffSet=0.11).
biodb.DEBUG[2023-10-14 11:09:25.529][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-14 11:09:25.531][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/856708e2bbeea806179c75604ab7003a.content"
biodb.TRACE[2023-10-14 11:09:25.540][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/856708e2bbeea806179c75604ab7003a.request"
biodb.DEBUG[2023-10-14 11:09:26.323][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:09:26.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:26.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:26.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:26.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:26.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:26.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:26.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:26.336][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.340][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.344][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:26.345][private$selectFields]
biodb.TRACE[2023-10-14 11:09:26.345][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:26.346][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:26.347][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:26.348][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.349][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.350][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.351][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.352][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.353][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.354][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.355][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.355][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:26.356][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:26.357][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.358][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.359][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.360][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.361][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:26.362][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.366][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.369][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.373][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:09:26.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:26.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:26.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:26.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:26.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:26.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:26.384][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.TRACE[2023-10-14 11:09:26.385][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.388][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.392][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:26.393][private$selectFields]
biodb.TRACE[2023-10-14 11:09:26.394][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:26.395][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:26.395][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:26.396][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.397][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.398][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.399][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.400][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.401][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.402][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.403][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.404][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:26.405][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:26.405][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.406][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.407][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.408][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.409][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:26.410][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.414][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.417][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.421][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:09:26.422][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:26.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:26.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:26.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:26.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:26.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:26.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:26.433][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.436][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.440][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:26.441][private$selectFields]
biodb.TRACE[2023-10-14 11:09:26.442][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:26.443][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:26.444][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:26.445][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.446][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.447][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.448][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.448][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.449][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.450][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.451][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.452][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:26.453][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:26.454][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.455][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.456][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.457][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.458][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:26.471][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.474][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.478][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:26.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:26.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:26.482][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:09:26.483][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:09:26.484][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:09:26.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:26.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:26.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:26.492][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:26.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:26.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:26.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:09:26.498][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.073274&ExactMassOffSet=0.11".
biodb.DEBUG[2023-10-14 11:09:26.501][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-14 11:09:26.502][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-14 11:09:26.503][private$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[2023-10-14 11:09:30.620][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[2023-10-14 11:09:41.571][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-14 11:09:41.576][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/213dc74fea82b4e00a3de9c6296d60ac.content"
biodb.TRACE[2023-10-14 11:09:41.584][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/213dc74fea82b4e00a3de9c6296d60ac.request"
biodb.DEBUG[2023-10-14 11:09:42.372][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:09:42.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:42.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:42.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:42.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:42.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:42.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:42.384][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.TRACE[2023-10-14 11:09:42.385][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.389][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.393][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:42.394][private$selectFields]
biodb.TRACE[2023-10-14 11:09:42.394][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:42.395][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:42.396][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:42.397][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.398][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.399][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.400][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.401][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.402][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.403][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.403][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.404][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:42.405][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:42.406][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.407][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.408][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.409][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.410][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:42.411][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.414][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.418][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.422][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:09:42.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:42.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:42.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:42.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:42.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:42.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:42.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:42.434][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.437][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.441][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:42.442][private$selectFields]
biodb.TRACE[2023-10-14 11:09:42.443][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:42.443][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:42.444][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:42.445][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.446][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.447][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.448][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.449][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.450][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.451][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.452][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.452][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:42.453][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:42.454][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.455][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.456][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.457][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.458][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:42.459][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.462][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.466][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.470][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:09:42.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:42.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:42.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:42.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:42.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:42.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:42.487][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[2023-10-14 11:09:42.489][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.493][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.498][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:42.499][private$selectFields]
biodb.TRACE[2023-10-14 11:09:42.500][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:42.501][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:42.502][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:42.503][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.504][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.505][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.506][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.508][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.509][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.510][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.511][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.512][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:42.513][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:42.514][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.515][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.516][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.517][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.564][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:42.566][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.570][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.574][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:42.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:42.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:42.578][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:09:42.579][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:09:42.580][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:09:42.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:42.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:42.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:42.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:42.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:42.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:42.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:09:42.596][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[2023-10-14 11:09:42.599][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-14 11:09:42.600][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-14 11:09:42.602][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.182429&ExactMassOffSet=0.11".
biodb.TRACE[2023-10-14 11:09:46.576][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.182429&ExactMassOffSet=0.11).
biodb.DEBUG[2023-10-14 11:09:57.285][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-14 11:09:57.287][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/599a9d63e9d10326d614f066b3a2769e.content"
biodb.TRACE[2023-10-14 11:09:57.296][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/599a9d63e9d10326d614f066b3a2769e.request"
biodb.DEBUG[2023-10-14 11:09:58.097][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:09:58.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:58.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:58.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:58.107][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:58.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:58.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:58.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:58.110][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.114][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.118][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:58.119][private$selectFields]
biodb.TRACE[2023-10-14 11:09:58.120][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:58.120][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:58.121][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:58.122][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.123][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.124][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.125][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.126][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.127][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.128][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.129][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.130][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:58.131][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:58.132][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.132][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.133][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.134][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.135][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:58.136][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.140][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.144][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.148][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:09:58.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:58.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:58.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:58.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:58.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:58.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:58.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:58.160][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.164][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.168][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:58.169][private$selectFields]
biodb.TRACE[2023-10-14 11:09:58.170][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:58.171][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:58.172][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:58.173][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.174][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.175][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.176][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.177][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.178][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.179][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.180][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.181][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:58.182][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:58.183][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.184][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.185][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.185][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.186][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:58.188][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.191][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.195][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.200][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:09:58.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:58.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:58.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:58.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:58.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:58.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:58.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:58.212][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.216][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.219][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:58.220][private$selectFields]
biodb.TRACE[2023-10-14 11:09:58.221][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:58.222][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:58.223][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:58.224][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.225][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.226][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.227][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.228][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.229][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.230][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.230][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.231][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:58.232][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:58.233][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.234][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.235][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.236][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.237][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:58.252][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.256][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.260][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:58.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:58.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:58.264][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:09:58.265][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:09:58.266][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:09:58.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:58.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:58.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:58.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:58.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:58.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:58.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:09:58.299][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2023-10-14 11:09:58.302][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:09:58.303][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2023-10-14 11:09:58.304][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:09:58.352][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2023-10-14 11:09:59.132][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:09:59.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:59.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:59.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:59.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:59.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:59.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:59.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:59.144][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.148][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.152][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:59.153][private$selectFields]
biodb.TRACE[2023-10-14 11:09:59.154][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:59.154][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:59.155][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:59.156][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.157][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.158][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.159][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.160][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.161][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.162][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.163][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.164][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:59.164][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:59.165][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.166][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.167][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.168][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.169][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:59.170][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.174][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.177][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.181][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:09:59.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:59.183][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:59.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:59.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:59.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:59.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:59.192][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.TRACE[2023-10-14 11:09:59.193][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.197][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.201][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:59.202][private$selectFields]
biodb.TRACE[2023-10-14 11:09:59.202][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:59.203][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:59.204][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:59.205][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.206][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.207][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.208][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.209][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.210][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.211][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.224][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.225][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:59.226][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:59.227][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.228][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.229][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.230][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.231][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:59.232][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.236][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.239][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.243][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:09:59.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:59.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:59.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:59.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:59.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:59.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:59.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:09:59.255][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.259][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.262][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:59.263][private$selectFields]
biodb.TRACE[2023-10-14 11:09:59.264][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:09:59.265][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:09:59.266][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:59.267][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.268][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.269][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.270][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.271][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.272][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.272][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.273][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.274][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:59.275][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:09:59.276][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.277][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.278][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.279][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.280][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:09:59.281][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.284][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.288][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:09:59.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:09:59.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:09:59.292][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:09:59.293][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:09:59.294][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:09:59.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:09:59.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:09:59.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:09:59.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:09:59.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:09:59.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:09:59.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:09:59.308][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.DEBUG[2023-10-14 11:09:59.311][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:09:59.312][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2023-10-14 11:09:59.313][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:09:59.358][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2023-10-14 11:10:00.149][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:10:00.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:00.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:00.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:00.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:00.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:00.160][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:00.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:00.162][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.166][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.170][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:00.171][private$selectFields]
biodb.TRACE[2023-10-14 11:10:00.171][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:00.172][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:00.173][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:00.174][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.175][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.176][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.177][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.178][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.179][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.180][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.181][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.182][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:00.183][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:00.184][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.185][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.185][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.186][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.187][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:00.188][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.192][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.208][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.212][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:10:00.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:00.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:00.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:00.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:00.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:00.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:00.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:00.223][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.227][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.231][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:00.232][private$selectFields]
biodb.TRACE[2023-10-14 11:10:00.233][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:00.234][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:00.234][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:00.235][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.236][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.237][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.238][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.239][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.240][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.241][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.242][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.243][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:00.244][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:00.245][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.246][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.246][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.247][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.248][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:00.249][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.253][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.257][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.261][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:10:00.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:00.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:00.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:00.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:00.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:00.270][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:00.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:00.272][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.276][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.280][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:00.280][private$selectFields]
biodb.TRACE[2023-10-14 11:10:00.281][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:00.282][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:00.283][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:00.284][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.285][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.286][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.287][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.288][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.289][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.289][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.290][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.291][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:00.292][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:00.293][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.294][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.295][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.296][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.297][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:00.298][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.301][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.305][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:00.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:00.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:00.309][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:10:00.310][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:10:00.311][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:10:00.313][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:00.313][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:00.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:00.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:00.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:00.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:00.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:10:00.325][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.DEBUG[2023-10-14 11:10:00.328][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:10:00.329][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2023-10-14 11:10:00.330][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:10:00.376][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2023-10-14 11:10:01.167][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:10:01.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:01.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:01.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:01.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:01.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:01.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:01.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:01.192][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.196][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.200][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:01.201][private$selectFields]
biodb.TRACE[2023-10-14 11:10:01.202][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:01.202][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:01.203][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:01.204][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.205][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.206][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.207][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.208][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.209][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.210][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.211][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.212][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:01.213][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:01.214][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.215][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.215][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.216][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.217][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:01.218][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.222][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.226][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.230][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:10:01.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:01.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:01.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:01.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:01.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:01.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:01.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:01.241][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.245][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.249][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:01.250][private$selectFields]
biodb.TRACE[2023-10-14 11:10:01.250][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:01.251][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:01.252][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:01.253][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.254][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.255][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.256][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.257][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.258][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.259][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.260][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.261][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:01.261][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:01.262][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.263][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.264][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.265][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.266][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:01.267][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.271][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.274][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.278][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:10:01.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:01.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:01.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:01.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:01.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:01.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:01.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:01.290][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.294][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.297][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:01.298][private$selectFields]
biodb.TRACE[2023-10-14 11:10:01.299][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:01.300][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:01.301][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:01.302][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.303][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.304][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.305][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.305][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.306][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.307][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.308][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.309][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:01.310][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:01.311][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.312][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.313][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.314][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.315][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:01.316][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.319][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.323][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:01.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:01.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:01.336][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:10:01.337][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:10:01.338][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:10:01.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:01.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:01.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:01.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:01.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:01.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:01.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:10:01.372][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.591025&ExactMassOffSet=0.11".
biodb.DEBUG[2023-10-14 11:10:01.375][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-14 11:10:01.376][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-14 11:10:01.377][private$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[2023-10-14 11:10:05.452][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[2023-10-14 11:10:16.678][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-14 11:10:16.681][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/ec7b47285bd6f593d724b6f7745f0646.content"
biodb.TRACE[2023-10-14 11:10:16.689][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/ec7b47285bd6f593d724b6f7745f0646.request"
biodb.DEBUG[2023-10-14 11:10:17.475][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:10:17.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:17.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:17.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:17.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:17.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:17.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:17.487][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[2023-10-14 11:10:17.488][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.491][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.495][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:17.496][private$selectFields]
biodb.TRACE[2023-10-14 11:10:17.497][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:17.498][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:17.499][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:17.500][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.501][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.501][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.502][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.503][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.504][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.505][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.506][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.507][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:17.508][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:17.509][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.510][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.511][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.511][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.512][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:17.513][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.517][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.521][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.525][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:10:17.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:17.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:17.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:17.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:17.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:17.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:17.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:17.536][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.540][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.543][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:17.544][private$selectFields]
biodb.TRACE[2023-10-14 11:10:17.545][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:17.546][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:17.547][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:17.548][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.549][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.550][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.551][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.551][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.552][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.553][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.554][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.555][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:17.556][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:17.557][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.558][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.559][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.560][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.560][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:17.561][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.565][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.569][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.573][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:10:17.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:17.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:17.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:17.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:17.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:17.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:17.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:17.584][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.588][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.591][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:17.592][private$selectFields]
biodb.TRACE[2023-10-14 11:10:17.593][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:17.594][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:17.595][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:17.596][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.597][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.598][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.599][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.600][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.601][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.602][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.602][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.603][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:17.604][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:17.605][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.606][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.607][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.608][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.621][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:17.622][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.626][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.629][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:17.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:17.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:17.633][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:10:17.634][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:10:17.635][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:10:17.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:17.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:17.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:17.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:17.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:17.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:17.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:10:17.649][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[2023-10-14 11:10:17.652][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-14 11:10:17.653][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-14 11:10:17.655][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.273274&ExactMassOffSet=0.11".
biodb.TRACE[2023-10-14 11:10:21.652][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.273274&ExactMassOffSet=0.11).
biodb.DEBUG[2023-10-14 11:10:32.694][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-14 11:10:32.696][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/236b5f2d20f6da60d3d5e29141c3c6fd.content"
biodb.TRACE[2023-10-14 11:10:32.705][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/236b5f2d20f6da60d3d5e29141c3c6fd.request"
biodb.DEBUG[2023-10-14 11:10:33.496][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:10:33.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:33.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:33.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:33.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:33.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:33.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:33.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:33.509][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.512][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.516][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:33.517][private$selectFields]
biodb.TRACE[2023-10-14 11:10:33.518][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:33.519][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:33.520][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:33.520][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.521][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.522][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.523][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.524][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.525][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.526][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.527][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.528][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:33.529][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:33.530][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.531][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.532][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.532][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.533][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:33.534][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.538][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.542][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.546][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:10:33.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:33.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:33.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:33.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:33.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:33.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:33.556][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.TRACE[2023-10-14 11:10:33.557][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.561][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.564][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:33.565][private$selectFields]
biodb.TRACE[2023-10-14 11:10:33.566][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:33.567][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:33.568][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:33.569][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.570][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.571][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.572][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.572][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.573][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.574][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.575][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.576][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:33.577][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:33.578][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.579][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.580][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.581][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.582][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:33.582][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.586][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.590][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.594][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:10:33.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:33.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:33.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:33.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:33.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:33.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:33.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:33.605][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.609][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.613][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:33.614][private$selectFields]
biodb.TRACE[2023-10-14 11:10:33.615][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:33.615][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:33.616][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:33.617][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.618][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.619][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.620][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.621][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.622][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.623][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.624][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.625][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:33.626][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:33.626][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.627][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.628][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.629][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.642][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:33.644][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.647][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.651][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:33.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:33.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:33.655][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:10:33.656][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:10:33.657][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:10:33.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:33.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:33.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:33.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:33.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:33.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:33.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:10:33.671][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.382429&ExactMassOffSet=0.11".
biodb.DEBUG[2023-10-14 11:10:33.674][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2023-10-14 11:10:33.675][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2023-10-14 11:10:33.676][private$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[2023-10-14 11:10:37.725][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[2023-10-14 11:10:48.935][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2023-10-14 11:10:48.937][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/c0ec3345a6e512e30aa3c52ef1c02f40.content"
biodb.TRACE[2023-10-14 11:10:48.946][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/c0ec3345a6e512e30aa3c52ef1c02f40.request"
biodb.DEBUG[2023-10-14 11:10:49.754][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:10:49.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:49.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:49.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:49.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:49.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:49.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:49.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:49.770][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.775][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.779][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:49.780][private$selectFields]
biodb.TRACE[2023-10-14 11:10:49.781][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:49.782][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:49.783][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:49.784][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.785][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.786][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.787][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.788][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.789][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.790][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.791][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.792][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:49.793][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:49.794][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.795][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.796][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.797][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.798][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:49.799][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.803][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.807][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.811][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:10:49.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:49.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:49.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:49.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:49.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:49.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:49.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:49.824][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.828][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.832][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:49.833][private$selectFields]
biodb.TRACE[2023-10-14 11:10:49.834][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:49.835][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:49.835][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:49.836][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.838][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.838][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.839][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.840][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.841][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.842][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.843][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.844][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:49.845][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:49.846][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.847][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.848][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.849][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.850][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:49.851][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.855][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.859][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.864][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:10:49.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:49.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:49.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:49.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:49.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:49.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:49.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:49.877][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.881][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.885][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:49.886][private$selectFields]
biodb.TRACE[2023-10-14 11:10:49.887][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:49.888][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:49.889][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:49.890][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.892][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.893][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.894][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.895][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.896][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.897][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.898][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.899][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:49.900][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:49.900][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.902][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.903][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.903][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.922][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:49.923][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.927][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.931][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:49.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:49.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:49.935][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:10:49.936][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:10:49.937][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:10:49.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:49.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:49.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:49.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:49.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:49.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:49.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:10:49.970][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[2023-10-14 11:10:49.973][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:10:49.974][cch$loadFileContent] Trying to load 1 files from cache: [1]: "856708e2bbeea806179c75604ab7003a".
biodb.TRACE[2023-10-14 11:10:49.975][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:10:50.023][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/856708e2bbeea806179c75604ab7003a.content".
biodb.DEBUG[2023-10-14 11:10:50.812][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:10:50.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:50.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:50.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:50.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:50.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:50.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:50.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:50.825][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.829][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.832][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:50.833][private$selectFields]
biodb.TRACE[2023-10-14 11:10:50.834][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:50.835][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:50.836][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:50.837][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.838][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.839][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.839][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.840][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.841][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.842][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.843][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.844][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:50.845][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:50.846][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.847][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.848][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.848][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.849][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:50.850][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.854][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.858][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.862][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:10:50.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:50.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:50.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:50.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:50.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:50.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:50.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:50.874][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.877][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.881][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:50.882][private$selectFields]
biodb.TRACE[2023-10-14 11:10:50.883][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:50.884][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:50.885][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:50.886][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.887][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.887][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.888][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.902][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.903][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.904][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.905][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.906][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:50.907][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:50.908][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.909][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.909][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.910][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.911][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:50.912][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.916][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.920][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.924][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:10:50.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:50.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:50.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:50.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:50.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:50.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:50.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:50.935][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.939][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.943][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:50.944][private$selectFields]
biodb.TRACE[2023-10-14 11:10:50.945][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:50.945][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:50.946][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:50.947][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.948][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.949][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.950][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.951][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.952][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.953][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.954][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.955][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:50.955][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:50.956][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.957][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.958][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.959][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.960][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:50.961][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.965][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.968][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:50.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:50.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:50.972][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:10:50.973][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:10:50.974][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:10:50.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:50.977][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:50.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:50.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:50.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:50.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:50.985][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[2023-10-14 11:10:50.988][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[2023-10-14 11:10:50.991][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:10:50.992][cch$loadFileContent] Trying to load 1 files from cache: [1]: "213dc74fea82b4e00a3de9c6296d60ac".
biodb.TRACE[2023-10-14 11:10:50.993][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:10:51.038][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/213dc74fea82b4e00a3de9c6296d60ac.content".
biodb.DEBUG[2023-10-14 11:10:51.823][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:10:51.825][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:51.826][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:51.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:51.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:51.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:51.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:51.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:51.836][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.840][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.844][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:51.845][private$selectFields]
biodb.TRACE[2023-10-14 11:10:51.846][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:51.847][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:51.847][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:51.848][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.849][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.850][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.851][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.852][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.853][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.854][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.855][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.856][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:51.857][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:51.858][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.859][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.860][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.860][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.861][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:51.862][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.879][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.882][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.886][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:10:51.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:51.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:51.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:51.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:51.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:51.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:51.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:51.898][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.902][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.906][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:51.906][private$selectFields]
biodb.TRACE[2023-10-14 11:10:51.907][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:51.908][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:51.909][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:51.910][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.911][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.912][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.913][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.914][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.915][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.916][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.916][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.917][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:51.918][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:51.919][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.920][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.921][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.922][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.923][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:51.924][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.927][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.931][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.935][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:10:51.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:51.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:51.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:51.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:51.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:51.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:51.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:51.947][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.950][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.954][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:51.955][private$selectFields]
biodb.TRACE[2023-10-14 11:10:51.956][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:51.957][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:51.958][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:51.958][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.959][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.960][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.961][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.962][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.963][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.964][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.965][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.966][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:51.967][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:51.968][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.968][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.969][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.970][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.971][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:51.972][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.976][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.980][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:51.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:51.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:51.984][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:10:51.984][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:10:51.985][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:10:51.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:51.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:51.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:51.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:51.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:51.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:51.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:10:52.000][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[2023-10-14 11:10:52.003][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:10:52.004][cch$loadFileContent] Trying to load 1 files from cache: [1]: "599a9d63e9d10326d614f066b3a2769e".
biodb.TRACE[2023-10-14 11:10:52.005][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:10:52.050][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/599a9d63e9d10326d614f066b3a2769e.content".
biodb.DEBUG[2023-10-14 11:10:52.849][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:10:52.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:52.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:52.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:52.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:52.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:52.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:52.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:52.874][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.878][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.881][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:52.882][private$selectFields]
biodb.TRACE[2023-10-14 11:10:52.883][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:52.884][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:52.885][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:52.886][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.887][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.888][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.889][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.890][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.891][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.892][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.892][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.893][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:52.894][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:52.895][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.896][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.897][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.898][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.899][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:52.900][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.903][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.907][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.911][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:10:52.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:52.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:52.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:52.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:52.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:52.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:52.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:52.923][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.926][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.930][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:52.931][private$selectFields]
biodb.TRACE[2023-10-14 11:10:52.932][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:52.933][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:52.934][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:52.934][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.935][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.936][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.937][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.938][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.939][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.940][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.941][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.942][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:52.943][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:52.944][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.945][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.945][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.946][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.947][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:52.948][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.952][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.955][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.959][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:10:52.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:52.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:52.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:52.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:52.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:52.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:52.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:52.971][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.975][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.978][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:52.979][private$selectFields]
biodb.TRACE[2023-10-14 11:10:52.980][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:52.981][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:52.982][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:52.983][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.984][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.985][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.986][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.987][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.988][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.989][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.990][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.990][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:52.991][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:52.992][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.993][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.994][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:52.995][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:52.996][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:52.997][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:52.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.010][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.014][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.018][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:10:53.019][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:10:53.019][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:10:53.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:53.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:53.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:53.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:53.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:53.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:53.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:10:53.053][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2023-10-14 11:10:53.056][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:10:53.057][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2023-10-14 11:10:53.058][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:10:53.104][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2023-10-14 11:10:53.886][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:10:53.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:53.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:53.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:53.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:53.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:53.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:53.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:53.899][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.903][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.906][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:53.907][private$selectFields]
biodb.TRACE[2023-10-14 11:10:53.908][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:53.909][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:53.910][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:53.911][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.912][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.913][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.914][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.915][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.916][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.916][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.917][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.918][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:53.919][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:53.920][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.921][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.922][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.923][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.924][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:53.925][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.928][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.932][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.936][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:10:53.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:53.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:53.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:53.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:53.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:53.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:53.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:53.948][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.951][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.955][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:53.956][private$selectFields]
biodb.TRACE[2023-10-14 11:10:53.957][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:53.958][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:53.959][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:53.960][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.961][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.962][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.962][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.963][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.964][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.965][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.966][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.980][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:53.981][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:53.982][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.983][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.983][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.984][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.985][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:53.986][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.990][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.994][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:53.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:53.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:53.998][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:10:53.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:54.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:54.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:54.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:54.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:54.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:54.008][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.TRACE[2023-10-14 11:10:54.010][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.013][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.017][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:54.018][private$selectFields]
biodb.TRACE[2023-10-14 11:10:54.019][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:54.020][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:54.021][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:54.021][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.022][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.023][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.024][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.025][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.026][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.027][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.028][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.029][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:54.030][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:54.031][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.032][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.033][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.033][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.034][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:54.035][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.039][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.043][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.047][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:10:54.048][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:10:54.049][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:10:54.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:54.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:54.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:54.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:54.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:54.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:54.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:10:54.063][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[2023-10-14 11:10:54.066][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:10:54.067][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2023-10-14 11:10:54.068][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:10:54.114][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2023-10-14 11:10:54.903][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:10:54.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:54.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:54.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:54.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:54.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:54.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:54.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:54.916][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.919][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.923][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:54.924][private$selectFields]
biodb.TRACE[2023-10-14 11:10:54.925][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:54.926][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:54.927][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:54.928][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.929][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.929][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.930][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.931][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.932][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.933][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.934][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.935][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:54.936][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:54.937][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.938][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.939][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.940][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.941][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:54.942][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.945][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.969][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.974][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:10:54.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:54.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:54.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:54.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:54.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:54.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:54.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:54.985][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.989][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:54.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:54.993][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:54.994][private$selectFields]
biodb.TRACE[2023-10-14 11:10:54.994][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:54.995][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:54.996][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:54.997][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.998][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:54.999][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.000][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.001][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.002][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.003][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.004][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.004][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:55.005][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:55.006][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.007][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.008][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.009][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.010][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:55.011][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.015][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.018][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.022][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:10:55.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:55.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:55.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:55.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:55.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:55.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:55.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:55.034][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.038][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.041][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:55.042][private$selectFields]
biodb.TRACE[2023-10-14 11:10:55.043][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:55.044][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:55.045][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:55.046][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.047][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.048][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.049][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.049][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.050][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.051][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.052][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.053][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:55.054][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:55.055][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.056][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.057][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.058][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.059][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:55.060][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.063][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.067][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.071][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:10:55.072][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:10:55.073][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:10:55.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:55.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:55.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:55.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:55.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:55.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:55.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:10:55.087][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[2023-10-14 11:10:55.090][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:10:55.091][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2023-10-14 11:10:55.093][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:10:55.138][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2023-10-14 11:10:55.935][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:10:55.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:55.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:55.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:55.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:55.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:55.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:55.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:55.962][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.966][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.969][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:55.970][private$selectFields]
biodb.TRACE[2023-10-14 11:10:55.971][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:55.972][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:55.973][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:55.974][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.975][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.976][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.977][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.978][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.978][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.979][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.980][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.981][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:55.982][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:55.983][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.984][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.985][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.986][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.987][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:55.988][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.991][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.995][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:55.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:55.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:55.999][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:10:56.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:56.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:56.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:56.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:56.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:56.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:56.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:56.011][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.015][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.018][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:56.019][private$selectFields]
biodb.TRACE[2023-10-14 11:10:56.020][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:56.021][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:56.022][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:56.023][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.024][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.025][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.026][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.027][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.027][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.028][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.029][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.030][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:56.031][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:56.032][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.033][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.034][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.035][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.036][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:56.037][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.040][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.044][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.048][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:10:56.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:56.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:56.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:56.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:56.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:56.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:56.059][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[2023-10-14 11:10:56.060][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.064][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.067][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:56.068][private$selectFields]
biodb.TRACE[2023-10-14 11:10:56.069][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:56.070][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:56.071][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:56.072][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.073][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.074][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.074][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.075][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.076][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.077][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.078][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.079][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:56.080][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:56.081][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.082][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.083][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.084][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.085][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:56.086][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.090][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.093][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.107][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:10:56.108][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:10:56.109][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:10:56.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:56.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:56.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:56.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:56.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:56.138][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:56.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:10:56.142][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[2023-10-14 11:10:56.145][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:10:56.146][cch$loadFileContent] Trying to load 1 files from cache: [1]: "ec7b47285bd6f593d724b6f7745f0646".
biodb.TRACE[2023-10-14 11:10:56.147][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:10:56.192][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/ec7b47285bd6f593d724b6f7745f0646.content".
biodb.DEBUG[2023-10-14 11:10:56.977][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:10:56.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:56.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:56.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:56.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:56.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:56.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:56.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:56.991][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.995][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:56.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:56.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:56.998][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:56.999][private$selectFields]
biodb.TRACE[2023-10-14 11:10:57.000][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:57.001][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:57.002][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:57.003][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.004][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.005][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.006][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.007][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.007][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.008][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.009][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.010][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:57.011][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:57.012][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.013][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.014][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.015][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.016][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:57.017][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.020][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.024][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.028][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:10:57.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:57.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:57.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:57.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:57.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:57.038][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:57.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:57.040][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.044][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.047][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:57.048][private$selectFields]
biodb.TRACE[2023-10-14 11:10:57.049][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:57.050][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:57.051][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:57.052][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.053][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.054][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.055][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.056][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.057][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.057][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.058][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.059][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:57.060][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:57.061][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.062][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.063][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.064][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.065][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:57.078][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.082][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.086][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.090][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:10:57.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:57.092][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:57.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:57.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:57.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:57.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:57.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:57.102][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.106][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.109][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:57.110][private$selectFields]
biodb.TRACE[2023-10-14 11:10:57.111][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:57.112][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:57.113][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:57.114][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.115][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.116][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.116][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.117][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.118][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.119][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.120][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.121][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:57.122][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:57.123][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.124][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.125][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.126][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.127][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:57.128][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.131][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.135][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:57.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:57.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:57.139][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:10:57.140][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:10:57.141][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:10:57.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:57.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:57.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:57.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:57.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:57.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:57.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:10:57.155][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[2023-10-14 11:10:57.158][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:10:57.159][cch$loadFileContent] Trying to load 1 files from cache: [1]: "236b5f2d20f6da60d3d5e29141c3c6fd".
biodb.TRACE[2023-10-14 11:10:57.160][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:10:57.203][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/236b5f2d20f6da60d3d5e29141c3c6fd.content".
biodb.DEBUG[2023-10-14 11:10:57.990][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:10:57.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:57.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:57.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:57.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:58.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:58.001][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:58.001][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[2023-10-14 11:10:58.003][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.006][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.010][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:58.011][private$selectFields]
biodb.TRACE[2023-10-14 11:10:58.012][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:58.013][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:58.014][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:58.015][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.016][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.017][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.017][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.018][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.019][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.020][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.021][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.022][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:58.023][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:58.024][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.025][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.026][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.027][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.028][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:58.029][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.032][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.036][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.040][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:10:58.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:58.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:58.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:58.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:58.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:58.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:58.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:58.065][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.069][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.072][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:58.073][private$selectFields]
biodb.TRACE[2023-10-14 11:10:58.074][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:58.075][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:58.076][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:58.077][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.078][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.079][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.080][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.081][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.082][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.083][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.083][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.084][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:58.085][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:58.086][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.087][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.088][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.089][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.090][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:58.091][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.095][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.098][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.102][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:10:58.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:58.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:58.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:58.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:58.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:58.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:58.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:58.114][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.118][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.121][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:58.122][private$selectFields]
biodb.TRACE[2023-10-14 11:10:58.123][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:58.124][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:58.125][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:58.126][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.127][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.128][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.128][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.129][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.130][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.131][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.132][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.133][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:58.134][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:58.135][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.136][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.137][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.138][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.138][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:58.139][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.143][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.147][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:58.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:58.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:58.151][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:10:58.152][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:10:58.153][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:10:58.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:58.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:58.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:58.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:58.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:58.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:58.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:10:58.167][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[2023-10-14 11:10:58.170][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:10:58.171][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c0ec3345a6e512e30aa3c52ef1c02f40".
biodb.TRACE[2023-10-14 11:10:58.172][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:10:58.211][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/c0ec3345a6e512e30aa3c52ef1c02f40.content".
biodb.DEBUG[2023-10-14 11:10:58.999][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:10:59.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:59.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:59.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:59.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:59.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:59.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:59.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:59.012][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.028][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.032][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:59.033][private$selectFields]
biodb.TRACE[2023-10-14 11:10:59.034][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:59.035][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:59.036][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:59.037][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.038][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.038][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.039][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.040][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.041][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.042][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.043][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.044][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:59.045][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:59.046][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.047][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.048][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.048][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.049][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:59.050][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.054][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.058][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.062][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-14 11:10:59.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:59.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:59.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:59.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:59.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:59.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:59.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:10:59.074][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.077][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.081][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:59.082][private$selectFields]
biodb.TRACE[2023-10-14 11:10:59.083][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:59.084][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:59.084][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:59.085][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.086][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.087][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.088][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.089][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.090][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.091][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.092][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.093][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:59.094][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:59.094][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.095][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.096][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.097][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.098][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:59.099][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.103][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.106][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.110][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-14 11:10:59.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:59.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:59.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:59.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:59.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:59.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:59.121][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[2023-10-14 11:10:59.122][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.126][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.130][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:59.131][private$selectFields]
biodb.TRACE[2023-10-14 11:10:59.132][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:10:59.133][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:10:59.133][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:59.134][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.135][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.136][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.137][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.138][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.139][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.140][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.141][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.142][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:59.143][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-14 11:10:59.144][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.145][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.146][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.146][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.147][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-14 11:10:59.148][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.152][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.156][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:10:59.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.160][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-14 11:10:59.161][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:10:59.162][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-14 11:10:59.192][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:10:59.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:10:59.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.196][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:10:59.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:10:59.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.200][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:10:59.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:10:59.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-14 11:10:59.207][biodb::testThat]
biodb.INFO [2023-10-14 11:10:59.208][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2023-10-14 11:10:59.209][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-14 11:10:59.210][biodb::testThat]
biodb.TRACE[2023-10-14 11:10:59.213][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:10:59.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:10:59.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.217][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:10:59.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:10:59.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.221][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-14 11:10:59.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-14 11:10:59.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:10:59.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:10:59.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:10:59.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:10:59.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-14 11:10:59.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-14 11:10:59.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:10:59.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:10:59.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:10:59.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-14 11:10:59.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:10:59.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:10:59.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:10:59.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:10:59.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:10:59.291][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:10:59.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:10:59.295][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2023-10-14 11:10:59.298][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:10:59.299][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2023-10-14 11:10:59.300][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:10:59.340][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2023-10-14 11:11:00.130][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:11:00.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:00.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:00.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:00.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:00.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:00.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:00.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:00.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.170][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.173][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.177][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.181][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.185][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.188][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.199][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.203][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.207][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.210][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.214][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:00.215][private$selectFields]
biodb.TRACE[2023-10-14 11:11:00.216][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:00.217][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:00.218][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:00.218][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.219][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.220][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.221][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.224][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.225][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.226][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.227][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.228][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.228][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.229][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.230][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.231][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.232][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.233][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.234][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.235][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.236][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.237][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.238][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.238][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.239][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.240][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.241][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.242][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.243][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.244][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.245][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.246][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.247][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.248][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.249][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.249][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.250][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.251][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.252][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.253][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.254][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.255][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.256][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.257][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.258][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.259][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.260][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.260][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.261][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.262][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.263][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.264][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.265][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.266][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.267][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.268][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.269][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.270][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.271][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.272][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.272][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.273][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.274][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.275][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.276][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.277][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:00.278][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:00.279][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.280][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.281][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.282][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.283][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.284][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.294][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.295][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.296][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.297][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.298][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.299][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.300][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.301][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.301][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.302][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.303][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.304][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.305][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.306][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.307][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.308][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.309][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.310][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.311][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.311][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.312][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.313][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.314][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.315][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.316][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.317][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.318][private$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[2023-10-14 11:11:00.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.341][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.345][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.349][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.352][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.356][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.360][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.364][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.367][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.371][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.386][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.390][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.393][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.397][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.401][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.405][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.414][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2023-10-14 11:11:00.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:00.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:00.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:00.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:00.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:00.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:00.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:00.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.451][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.455][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.459][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.463][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.466][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.470][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.481][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.485][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.488][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.492][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.496][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:00.497][private$selectFields]
biodb.TRACE[2023-10-14 11:11:00.498][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:00.498][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:00.499][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:00.500][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.501][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.502][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.503][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.504][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.505][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.506][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.507][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.507][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.508][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.509][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.510][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.511][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.512][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.513][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.514][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.515][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.516][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.517][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.517][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.518][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.519][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.520][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.521][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.522][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.523][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.524][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.525][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.526][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.527][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.527][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.528][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.529][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.530][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.531][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.532][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.533][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.534][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.535][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.536][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.537][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.538][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.538][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.539][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.540][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.541][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.542][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.543][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.544][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.545][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.546][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.547][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.548][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.549][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.549][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.550][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.551][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.552][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.553][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.554][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.555][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.556][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.557][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.558][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.559][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:00.560][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:00.561][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.562][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.563][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.563][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.564][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.565][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.566][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.567][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.568][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.569][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.570][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.571][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.572][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.573][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.583][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.584][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.585][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.586][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.587][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.588][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.589][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.590][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.590][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.591][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.592][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.593][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.594][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.595][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.596][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.597][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.598][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.599][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.600][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2023-10-14 11:11:00.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.623][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.627][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.631][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.634][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.638][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.642][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.645][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.649][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.653][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.671][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.675][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.679][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.683][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.686][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.694][private$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[2023-10-14 11:11:00.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:00.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:00.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:00.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:00.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:00.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:00.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:00.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.730][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.734][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.737][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.741][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.745][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.748][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.760][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.763][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.767][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.771][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.774][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:00.775][private$selectFields]
biodb.TRACE[2023-10-14 11:11:00.776][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:00.777][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:00.778][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:00.779][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.780][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.781][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.781][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.782][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.783][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.784][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.785][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.786][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.787][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.788][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.789][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.790][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.791][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.791][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.792][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.793][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.794][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.795][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.796][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.797][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.798][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.799][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.800][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.800][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.801][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.802][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.803][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.804][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.805][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.806][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.807][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.808][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.809][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.810][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.810][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.811][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.812][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:00.813][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.814][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.815][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.816][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.817][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.818][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.819][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.820][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.820][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.821][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.822][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.823][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.824][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.825][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.826][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.827][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.828][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.829][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.830][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.831][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.831][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.832][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.833][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.834][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.835][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.836][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.837][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:00.838][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:00.839][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.840][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.841][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.842][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.842][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.843][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.844][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.845][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.846][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.847][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.848][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.849][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.850][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.851][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.852][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.853][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.854][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.856][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.857][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.858][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.859][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.861][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.862][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.877][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.878][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.879][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.880][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.881][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.882][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2023-10-14 11:11:00.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:00.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:00.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.895][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.898][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.902][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:00.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.906][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.910][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.913][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:00.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:00.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.917][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.921][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.925][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:00.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:00.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.943][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.947][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:00.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:00.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.951][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.955][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.958][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:00.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:00.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:00.965][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2023-10-14 11:11:00.966][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:11:00.967][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:11:00.969][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:00.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:00.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:00.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:00.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:00.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:00.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:11:00.982][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[2023-10-14 11:11:00.985][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:11:00.986][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2023-10-14 11:11:00.987][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:11:01.027][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2023-10-14 11:11:01.819][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:11:01.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:01.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:01.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:01.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:01.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:01.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:01.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:01.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:01.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:01.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:01.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:01.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:01.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:01.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:01.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:01.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.860][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:01.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:01.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.864][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:01.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:01.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.868][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:01.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:01.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.871][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:01.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:01.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.875][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:01.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:01.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.879][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:01.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:01.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:01.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:01.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:01.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:01.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.890][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:01.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:01.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.894][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:01.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:01.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.897][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:01.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:01.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.901][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:01.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:01.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.905][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:01.905][private$selectFields]
biodb.TRACE[2023-10-14 11:11:01.906][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:01.907][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:01.908][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:01.909][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:01.910][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:01.911][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.912][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.913][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:01.914][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:01.915][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.915][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.916][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:01.917][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:01.918][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.919][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.920][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:01.921][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:01.922][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.923][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.924][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:01.925][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:01.925][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.926][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.927][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:01.928][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:01.929][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.930][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.931][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:01.932][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:01.933][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.933][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.934][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:01.935][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:01.936][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.937][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.938][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:01.939][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:01.940][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.941][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.942][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:01.943][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:01.943][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.944][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.945][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:01.946][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:01.947][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.948][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.949][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:01.950][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:01.951][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.952][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.953][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:01.954][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:01.954][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.955][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.956][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:01.957][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:01.958][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.959][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.960][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:01.961][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:01.962][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.963][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.964][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:01.965][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:01.965][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.966][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.967][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:01.968][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:01.969][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:01.970][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:01.971][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.972][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.973][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:01.974][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:01.975][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.976][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.977][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:01.978][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:01.979][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.979][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.980][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:01.981][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:01.982][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.983][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.984][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:01.985][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:01.986][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:01.987][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:01.997][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:01.998][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:01.999][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.000][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.001][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.002][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.003][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.004][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.005][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.006][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.006][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.007][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.008][private$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[2023-10-14 11:11:02.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.032][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.035][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.039][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.043][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.047][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.050][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.054][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.058][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.061][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.080][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.084][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.087][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.091][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.095][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.102][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2023-10-14 11:11:02.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:02.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:02.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:02.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:02.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:02.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:02.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:02.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.129][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.142][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.146][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.150][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.154][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.158][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.169][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.173][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.176][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.180][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.184][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:02.184][private$selectFields]
biodb.TRACE[2023-10-14 11:11:02.185][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:02.186][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:02.187][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:02.188][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.189][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.190][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.191][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.194][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.194][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.195][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.196][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.197][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.198][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.199][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.200][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.201][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.202][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.203][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.204][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.205][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.205][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.206][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.207][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.208][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.209][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.210][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.211][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.212][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.213][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.214][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.215][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.216][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.216][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.217][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.218][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.219][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.220][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.221][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.222][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.223][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.224][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.225][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.226][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.226][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.227][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.228][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.229][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.230][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.231][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.232][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.233][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.234][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.235][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.236][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.237][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.237][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.238][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.239][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.240][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.241][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.242][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.243][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.244][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.245][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.246][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.247][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:02.248][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:02.249][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.250][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.250][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.251][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.252][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.253][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.254][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.255][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.256][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.257][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.258][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.259][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.260][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.261][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.262][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.263][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.264][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.265][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.265][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.266][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.267][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.268][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.269][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.270][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.271][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.272][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.273][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.274][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.284][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.285][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.286][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.287][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.288][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2023-10-14 11:11:02.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.311][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.315][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.319][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.326][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.332][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.336][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.340][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.345][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.349][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.366][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.370][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.379][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.383][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.387][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.396][private$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[2023-10-14 11:11:02.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:02.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:02.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:02.407][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:02.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:02.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:02.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:02.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.428][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.432][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.437][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.461][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.465][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.469][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.480][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.485][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.488][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.492][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.496][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:02.497][private$selectFields]
biodb.TRACE[2023-10-14 11:11:02.498][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:02.499][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:02.500][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:02.501][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.502][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.503][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.504][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.504][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.505][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.506][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.507][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.508][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.509][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.510][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.511][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.512][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.513][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.514][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.514][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.515][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.516][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.517][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.518][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.519][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.520][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.521][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.522][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.523][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.524][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.524][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.525][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.526][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.527][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.528][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.529][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.530][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.531][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.532][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.533][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.533][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.534][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:02.535][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.536][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.537][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.538][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.539][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.540][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.541][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.542][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.543][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.543][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.544][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.545][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.546][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.547][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.548][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.549][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.550][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.551][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.552][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.553][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.553][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.554][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.555][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.556][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.557][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.558][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.559][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:02.560][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:02.561][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.562][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.563][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.564][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.565][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.566][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.566][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.567][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.568][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.569][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.570][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.571][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.572][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.573][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.574][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.575][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.576][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.577][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.577][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.578][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.579][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.580][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.581][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.582][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.583][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.584][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.585][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.586][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.587][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2023-10-14 11:11:02.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:02.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:02.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.609][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.612][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.616][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:02.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.620][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.624][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.627][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:02.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:02.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.631][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.635][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.638][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:02.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:02.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.653][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.657][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:02.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:02.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.665][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.668][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.672][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:02.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:02.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:02.679][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2023-10-14 11:11:02.680][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:11:02.680][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:11:02.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:02.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:02.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:02.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:02.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:02.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:02.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:11:02.695][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[2023-10-14 11:11:02.698][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:11:02.700][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2023-10-14 11:11:02.701][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:11:02.745][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2023-10-14 11:11:03.538][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:11:03.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:03.541][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:03.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:03.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:03.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:03.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:03.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:03.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:03.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:03.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:03.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:03.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.566][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.583][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.587][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:03.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:03.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.591][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:03.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:03.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.594][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.598][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.609][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:03.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:03.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.613][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:03.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:03.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.617][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.621][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.624][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:03.625][private$selectFields]
biodb.TRACE[2023-10-14 11:11:03.626][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:03.627][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:03.628][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:03.629][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:03.630][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:03.631][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.631][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.632][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.633][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.634][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.635][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.636][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.637][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.638][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.639][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.640][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:03.641][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:03.642][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.642][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.643][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.644][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.645][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.646][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.647][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.648][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.649][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.650][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.651][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:03.652][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:03.652][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.653][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.654][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.655][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.656][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.657][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.658][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:03.659][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:03.660][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.661][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.661][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.662][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.663][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.664][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.665][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.666][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.667][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.668][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.669][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:03.670][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:03.671][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.671][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.672][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.673][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.674][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.675][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.676][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.677][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.678][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.679][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.680][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:03.681][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:03.681][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.682][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.683][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.684][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.685][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.686][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.687][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:03.688][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:03.689][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:03.690][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:03.691][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.692][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.693][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.694][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.695][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.696][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.697][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.698][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.699][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.700][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:03.701][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:03.702][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.703][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.704][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.705][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.705][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.706][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.707][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.708][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.709][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.710][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.711][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:03.712][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:03.713][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.714][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.715][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.716][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.726][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.727][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.728][private$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[2023-10-14 11:11:03.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:03.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:03.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:03.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:03.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:03.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:03.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.752][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.755][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.759][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.763][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:03.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:03.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.766][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:03.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:03.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.770][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:03.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:03.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.774][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.778][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.781][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.796][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:03.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:03.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:03.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:03.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.804][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:03.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:03.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.807][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.811][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.815][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.822][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2023-10-14 11:11:03.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:03.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:03.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:03.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:03.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:03.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:03.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:03.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:03.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:03.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:03.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:03.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.849][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.852][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.856][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:03.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:03.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.873][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:03.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:03.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.877][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.880][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.891][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:03.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:03.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.895][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:03.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:03.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.899][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.902][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.906][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:03.907][private$selectFields]
biodb.TRACE[2023-10-14 11:11:03.908][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:03.909][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:03.910][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:03.911][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:03.912][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:03.912][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.913][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.915][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.916][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.917][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.918][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.919][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.920][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.921][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.921][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:03.922][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:03.923][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.924][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.925][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.926][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.927][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.928][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.929][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.930][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.931][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.931][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.932][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:03.933][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:03.934][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.935][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.936][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.937][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.938][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.939][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.940][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:03.941][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:03.941][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.942][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.943][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.944][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.945][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.946][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.947][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.948][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.949][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.950][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.950][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:03.951][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:03.952][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.953][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.954][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.955][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.956][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.957][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.958][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.959][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.960][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.960][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.961][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:03.962][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:03.963][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.964][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.965][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.966][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.967][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.968][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.969][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:03.970][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:03.970][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:03.971][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:03.972][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.973][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.974][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.975][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:03.976][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.977][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.978][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.979][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:03.980][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.981][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.982][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:03.982][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:03.983][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.984][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.985][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.986][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:03.987][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.988][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.989][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.990][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:03.991][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.992][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.993][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:03.994][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:03.994][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.995][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:03.996][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.997][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:03.998][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:03.999][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.000][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2023-10-14 11:11:04.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:04.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:04.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:04.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:04.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:04.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:04.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:04.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:04.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:04.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:04.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:04.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:04.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.033][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.037][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.041][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.044][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:04.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:04.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.048][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:04.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:04.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.052][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:04.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:04.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.055][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.059][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.063][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.078][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:04.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:04.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.081][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:04.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:04.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.085][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:04.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:04.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.089][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.093][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.096][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.103][private$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[2023-10-14 11:11:04.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:04.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:04.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:04.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:04.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:04.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:04.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:04.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:04.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:04.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:04.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:04.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:04.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:04.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:04.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:04.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.130][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.134][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.137][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:04.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:04.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.141][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:04.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:04.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.145][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.149][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.170][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:04.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:04.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.174][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:04.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:04.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.178][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.181][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.185][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:04.186][private$selectFields]
biodb.TRACE[2023-10-14 11:11:04.187][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:04.188][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:04.188][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:04.189][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:04.190][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:04.191][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.192][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.193][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:04.194][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:04.195][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.196][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.197][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.198][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.199][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.199][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.200][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:04.201][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:04.202][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.203][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.204][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.205][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.206][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.207][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.208][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.209][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.209][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.210][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.211][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:04.212][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:04.213][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.214][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.215][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.216][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.217][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.218][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.218][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:04.219][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:04.220][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.221][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:04.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:04.224][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.225][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.226][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.227][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.228][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.228][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.229][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:04.230][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:04.231][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.232][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.233][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.234][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.235][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.236][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.237][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.237][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.238][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.239][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.240][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:04.241][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:04.242][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.243][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.244][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.245][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.246][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.246][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.247][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:04.248][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:04.249][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:04.250][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:04.251][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.252][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.253][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.254][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.255][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.256][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.256][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:04.257][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:04.258][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.259][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.260][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.261][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.262][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.263][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.264][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.265][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.266][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.267][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.267][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:04.268][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:04.269][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.270][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.271][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.272][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.273][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.274][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.275][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2023-10-14 11:11:04.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:04.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:04.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:04.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:04.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:04.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:04.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.287][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.291][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.304][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:04.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.308][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:04.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:04.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.312][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:04.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:04.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.316][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:04.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:04.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.320][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.323][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.327][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:04.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:04.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.342][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:04.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:04.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:04.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:04.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:04.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:04.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.353][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.357][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.360][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:04.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:04.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:04.367][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2023-10-14 11:11:04.368][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:11:04.369][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:11:04.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:04.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:04.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:04.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:04.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:04.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:04.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:11:04.389][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2023-10-14 11:11:04.392][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:11:04.393][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2023-10-14 11:11:04.394][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:11:04.433][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2023-10-14 11:11:05.227][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:11:05.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:05.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:05.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:05.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:05.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:05.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:05.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:05.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.255][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.259][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.263][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.266][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.283][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.287][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.298][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.306][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.309][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.313][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.317][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.320][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2023-10-14 11:11:05.321][private$selectFields]
biodb.TRACE[2023-10-14 11:11:05.322][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:05.323][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:05.324][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2023-10-14 11:11:05.325][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.326][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.327][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.328][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.329][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.330][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.330][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.331][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.332][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.333][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.334][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.335][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.336][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.337][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.338][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.339][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.340][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.341][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.341][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.342][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.343][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.344][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.345][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.346][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.347][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.348][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.349][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.349][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.350][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.351][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.352][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.353][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.354][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.355][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.356][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.357][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.358][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.359][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.360][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.360][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.361][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.362][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.363][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.364][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.365][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.366][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.367][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.368][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.369][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.369][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.370][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.371][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.372][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.373][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.374][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.375][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.376][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.377][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.378][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.378][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.379][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.380][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.381][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.382][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.383][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.384][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.385][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.386][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.387][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.388][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.389][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.389][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.390][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:05.391][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:05.392][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.393][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.394][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.395][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.396][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.397][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.398][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.399][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.400][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.401][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.402][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.403][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.403][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.404][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.405][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.406][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.407][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.408][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.409][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.410][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.411][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.412][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.413][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.414][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.414][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.415][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.426][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.427][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.428][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.429][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.430][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.431][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.432][private$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[2023-10-14 11:11:05.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.455][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.459][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.462][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.466][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.470][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.474][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.477][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.481][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.485][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.500][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.503][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.507][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.511][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.514][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.518][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.525][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2023-10-14 11:11:05.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:05.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:05.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:05.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:05.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:05.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:05.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:05.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.552][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.556][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.569][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.573][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.577][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.581][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.592][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.595][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.599][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.603][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.606][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.610][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.614][private$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[2023-10-14 11:11:05.615][private$selectFields]
biodb.TRACE[2023-10-14 11:11:05.616][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:05.616][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:05.617][private$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[2023-10-14 11:11:05.618][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.619][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.620][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.621][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.622][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.623][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.624][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.625][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.625][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.626][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.627][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.628][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.629][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.630][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.631][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.632][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.633][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.634][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.635][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.635][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.636][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.637][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.638][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.639][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.640][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.641][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.642][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.643][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.644][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.645][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.645][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.646][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.647][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.648][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.649][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.650][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.651][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.652][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.653][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.654][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.654][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.655][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.656][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.657][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.658][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.659][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.660][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.661][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.662][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.663][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.664][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.664][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.665][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.666][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.667][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.668][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.669][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.670][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.671][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.672][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.673][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.674][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.675][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.675][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.676][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.677][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.678][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.679][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.680][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.681][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.682][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.683][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.684][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:05.685][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:05.686][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.687][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.687][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.688][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.689][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.690][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.691][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.692][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.693][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.694][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.695][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.696][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.697][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.698][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.699][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.700][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.700][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.701][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.712][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.713][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.714][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.715][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.716][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.717][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.718][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.719][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.719][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.720][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.721][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.722][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.723][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.724][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.725][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2023-10-14 11:11:05.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.748][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.752][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.756][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.759][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.763][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.767][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.771][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.774][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.778][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.793][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.796][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.804][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.808][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.811][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.819][private$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[2023-10-14 11:11:05.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:05.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:05.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:05.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:05.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:05.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:05.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:05.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.855][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.859][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.863][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.866][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.870][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.874][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.885][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.888][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.892][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.896][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.900][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.903][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.907][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2023-10-14 11:11:05.908][private$selectFields]
biodb.TRACE[2023-10-14 11:11:05.909][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:05.909][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:05.910][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2023-10-14 11:11:05.911][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.912][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.913][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.914][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.915][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.916][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.917][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.918][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.919][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.920][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.920][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.921][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.922][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.923][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.924][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.925][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.926][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.927][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.928][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.929][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.929][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.930][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.931][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.932][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.933][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.934][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.935][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.936][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.937][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.938][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.938][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.939][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.940][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.941][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.942][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.943][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.944][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.945][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.946][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.947][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.948][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.948][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:05.949][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.950][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.951][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.952][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.953][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.954][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.955][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.956][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:05.957][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.958][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.959][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.960][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:05.960][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.961][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.962][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.963][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:05.964][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.965][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.966][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:05.967][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:05.968][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.969][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.970][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.971][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:05.972][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.973][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.974][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.976][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:05.977][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.978][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.979][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:05.981][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:05.982][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:05.984][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:05.985][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.986][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.988][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.989][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:05.990][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:05.991][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:05.992][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:05.993][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:06.003][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.004][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.006][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:06.007][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:06.008][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.009][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.010][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:06.011][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:06.011][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.012][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.013][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:06.014][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:06.015][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.016][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.017][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:06.018][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:06.019][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.020][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.021][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2023-10-14 11:11:06.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:06.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:06.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:06.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:06.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:06.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:06.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.033][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:06.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:06.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.037][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:06.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:06.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.041][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:06.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:06.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.044][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:06.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:06.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.048][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:06.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:06.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.052][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:06.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:06.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.056][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:06.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:06.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.059][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:06.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:06.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.063][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:06.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:06.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:06.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:06.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:06.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:06.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:06.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:06.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.078][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:06.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:06.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.082][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:06.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:06.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.086][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:06.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:06.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.089][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:06.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:06.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.093][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:06.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:06.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.097][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:06.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:06.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.104][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2023-10-14 11:11:06.105][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:11:06.105][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:11:06.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:06.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:06.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:06.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:06.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:06.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:06.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:11:06.121][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[2023-10-14 11:11:06.124][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:11:06.125][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2023-10-14 11:11:06.126][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:11:06.165][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2023-10-14 11:11:06.946][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:11:06.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:06.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:06.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:06.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:06.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:06.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:06.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:06.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:06.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:06.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:06.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:06.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:06.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:06.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:06.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:06.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.986][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:06.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:06.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.989][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:06.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:06.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.993][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:06.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:06.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:06.997][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:06.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:06.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:06.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.000][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.004][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.015][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.019][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.022][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.026][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.030][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.033][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.037][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2023-10-14 11:11:07.038][private$selectFields]
biodb.TRACE[2023-10-14 11:11:07.039][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:07.040][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:07.041][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2023-10-14 11:11:07.041][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.042][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.043][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.044][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.045][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.046][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.047][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.048][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.049][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.050][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.051][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.051][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.052][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.053][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.054][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.055][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.056][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.057][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.058][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.059][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.060][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.060][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.061][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.062][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.063][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.064][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.065][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.066][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.067][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.068][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.069][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.070][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.070][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.071][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.072][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.073][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.074][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.075][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.076][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.077][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.078][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.079][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.080][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.081][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.081][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.082][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.083][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.084][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.085][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.086][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.087][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.088][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.089][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.090][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.091][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.092][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.093][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.094][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.094][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.095][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.096][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.097][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.098][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.099][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.109][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.110][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.111][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.112][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.113][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.114][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.115][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.116][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.117][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:07.118][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:07.119][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.119][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.120][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.121][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.122][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.123][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.124][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.125][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.126][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.127][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.128][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.128][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.129][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.130][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.131][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.132][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.133][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.134][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.135][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.136][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.137][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.138][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.139][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.139][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.140][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.141][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.142][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.143][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.144][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.145][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.146][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.147][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.148][private$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[2023-10-14 11:11:07.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.171][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.174][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.178][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.182][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.186][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.189][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.193][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.197][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.200][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.215][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.219][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.223][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.226][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.230][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.234][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.250][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2023-10-14 11:11:07.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:07.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:07.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:07.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:07.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:07.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:07.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:07.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.277][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.281][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.284][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.288][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.292][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.295][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.306][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.310][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.314][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.317][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.321][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.325][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.328][private$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[2023-10-14 11:11:07.329][private$selectFields]
biodb.TRACE[2023-10-14 11:11:07.330][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:07.331][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:07.332][private$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[2023-10-14 11:11:07.333][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.334][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.334][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.335][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.336][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.337][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.338][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.339][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.340][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.341][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.342][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.343][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.343][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.344][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.345][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.346][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.347][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.348][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.349][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.350][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.351][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.352][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.353][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.353][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.354][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.355][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.356][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.357][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.358][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.359][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.360][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.361][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.362][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.363][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.364][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.364][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.365][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.366][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.367][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.368][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.369][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.370][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.371][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.372][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.373][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.374][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.375][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.376][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.376][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.377][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.378][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.379][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.380][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.381][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.382][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.392][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.393][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.394][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.395][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.396][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.397][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.398][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.399][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.400][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.400][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.401][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.402][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.403][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.404][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.405][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.406][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.407][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.408][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:07.409][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:07.410][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.411][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.411][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.412][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.413][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.414][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.415][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.416][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.417][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.418][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.419][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.420][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.420][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.421][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.422][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.423][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.424][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.425][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.426][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.427][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.428][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.429][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.430][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.430][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.431][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.432][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.433][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.434][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.435][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.436][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.437][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.438][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.439][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2023-10-14 11:11:07.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.462][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.465][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.469][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.473][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.477][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.480][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.484][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.488][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.491][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.506][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.510][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.514][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.518][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.521][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.534][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.542][private$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[2023-10-14 11:11:07.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:07.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:07.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:07.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:07.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:07.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:07.552][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.TRACE[2023-10-14 11:11:07.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.568][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.572][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.575][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.579][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.583][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.586][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.597][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.601][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.604][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.608][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.612][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.615][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.619][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2023-10-14 11:11:07.620][private$selectFields]
biodb.TRACE[2023-10-14 11:11:07.621][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:07.622][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:07.622][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2023-10-14 11:11:07.623][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.624][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.625][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.626][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.627][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.628][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.629][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.630][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.631][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.632][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.633][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.633][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.634][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.635][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.636][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.637][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.638][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.639][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.640][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.641][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.642][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.643][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.644][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.644][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.645][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.646][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.647][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.648][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.649][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.650][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.651][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.652][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.653][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.654][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.655][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.655][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.656][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.657][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.658][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.659][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.660][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.661][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:07.662][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.663][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.664][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.665][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.675][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.676][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.677][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.678][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.679][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.679][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.680][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.681][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.682][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.683][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.684][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.685][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.686][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.687][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.688][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.689][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.689][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.690][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.691][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.692][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.693][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.694][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.695][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.696][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:07.697][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.698][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.699][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:07.699][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:07.700][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.701][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.702][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.703][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.704][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.705][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.706][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.707][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.708][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.709][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.710][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.710][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.711][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.712][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.713][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.714][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.715][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.716][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.717][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.718][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.719][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.719][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.720][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.721][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.722][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.723][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.724][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.725][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.726][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2023-10-14 11:11:07.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:07.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:07.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.738][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.741][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.745][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:07.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.749][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.753][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.756][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:07.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:07.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.760][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.764][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.767][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:07.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:07.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.782][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.786][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.790][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:07.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:07.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.794][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.797][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.801][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:07.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:07.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:07.817][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2023-10-14 11:11:07.818][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:11:07.819][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2023-10-14 11:11:07.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:07.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:07.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:07.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:07.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:07.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:07.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-14 11:11:07.834][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[2023-10-14 11:11:07.837][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-14 11:11:07.838][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2023-10-14 11:11:07.839][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-14 11:11:07.878][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2023-10-14 11:11:08.654][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-14 11:11:08.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:08.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:08.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:08.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:08.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:08.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:08.666][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[2023-10-14 11:11:08.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:08.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:08.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:08.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:08.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.682][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.685][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.689][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:08.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:08.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.693][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:08.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:08.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.696][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.700][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.711][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:08.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:08.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.715][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:08.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:08.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.718][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.722][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.726][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:08.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:08.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.729][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:08.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:08.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.733][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2023-10-14 11:11:08.734][private$selectFields]
biodb.TRACE[2023-10-14 11:11:08.735][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:08.736][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:08.737][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2023-10-14 11:11:08.738][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:08.739][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:08.739][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.740][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.741][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.742][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.743][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.744][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.745][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.746][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.747][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.748][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.749][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:08.750][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:08.751][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.751][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.752][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.753][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.754][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.755][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.756][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.757][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.758][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.759][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.772][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:08.773][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:08.774][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.775][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.776][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.777][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.778][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.779][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.780][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:08.781][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:08.782][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.783][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.783][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:08.784][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:08.785][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.786][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.787][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.788][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.789][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.790][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.791][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.792][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.793][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.793][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.794][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:08.795][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:08.796][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.797][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.798][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.799][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.800][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.801][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.802][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.803][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.803][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.804][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.805][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:08.806][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:08.807][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.808][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.809][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.810][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.811][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.812][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.812][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:08.813][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:08.814][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.815][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.816][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:08.817][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:08.818][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:08.819][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:08.820][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.821][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.822][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.823][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.823][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.824][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.825][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.826][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.827][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.828][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.829][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:08.830][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:08.831][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.832][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.832][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.833][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.834][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.835][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.836][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.837][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.838][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.839][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.840][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:08.841][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:08.842][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.842][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.843][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.844][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.845][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.846][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.847][private$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[2023-10-14 11:11:08.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:08.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:08.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:08.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:08.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:08.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:08.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.870][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.874][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.878][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.881][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:08.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:08.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.885][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:08.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:08.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.889][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:08.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:08.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.893][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.896][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.900][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:08.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:08.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:08.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.928][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:08.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:08.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.932][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:08.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:08.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.936][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.940][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.943][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:08.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.950][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2023-10-14 11:11:08.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:08.952][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:08.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:08.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:08.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:08.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:08.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:08.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:08.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:08.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:08.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:08.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:08.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.977][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.980][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:08.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.984][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:08.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:08.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.988][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:08.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:08.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.991][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.995][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:08.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:08.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:08.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.006][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.009][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.013][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.017][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.021][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.024][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.028][private$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[2023-10-14 11:11:09.029][private$selectFields]
biodb.TRACE[2023-10-14 11:11:09.030][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:09.031][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:09.032][private$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[2023-10-14 11:11:09.032][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:09.033][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:09.034][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.035][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.036][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.037][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.038][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.039][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.040][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.041][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.042][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.043][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.044][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:09.045][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:09.054][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.055][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.056][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.058][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.058][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.059][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.060][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.061][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.062][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.063][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.064][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.065][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.066][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.067][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.068][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.068][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.069][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.070][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.071][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.072][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.073][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.074][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.075][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:09.076][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:09.077][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.078][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.078][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.079][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.080][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.081][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.082][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.083][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.084][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.085][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.086][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:09.087][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:09.088][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.088][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.089][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.090][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.091][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.092][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.093][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.094][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.095][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.096][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.097][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.098][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.098][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.099][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.100][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.101][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.102][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.103][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.104][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.105][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.106][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.106][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.107][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:09.108][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:09.109][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:09.110][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:09.111][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.112][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.113][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.114][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.115][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.116][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.116][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.117][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.118][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.119][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.120][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:09.121][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:09.122][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.123][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.124][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.125][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.126][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.126][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.127][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.128][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.129][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.130][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.131][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.132][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.133][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.134][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.134][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.135][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.136][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.137][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.138][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2023-10-14 11:11:09.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:09.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:09.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:09.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:09.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:09.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:09.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.161][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.165][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.169][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.173][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:09.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:09.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.176][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:09.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:09.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.180][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:09.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:09.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.184][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.197][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.201][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.216][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.219][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.223][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.227][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.230][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.234][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.241][private$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[2023-10-14 11:11:09.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-14 11:11:09.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:09.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:09.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:09.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:09.251][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:09.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-14 11:11:09.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:09.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:09.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:09.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:09.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.267][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.271][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.275][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:09.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:09.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.278][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:09.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:09.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.282][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.286][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.297][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.304][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.308][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.311][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.315][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.319][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2023-10-14 11:11:09.320][private$selectFields]
biodb.TRACE[2023-10-14 11:11:09.321][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-14 11:11:09.322][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-14 11:11:09.322][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2023-10-14 11:11:09.323][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:09.324][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:09.325][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.337][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.338][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.339][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.340][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.341][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.342][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.343][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.344][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.345][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.346][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:09.347][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:09.348][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.349][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.349][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.350][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.351][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.352][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.353][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.354][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.355][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.356][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.357][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.358][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.358][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.359][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.360][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.361][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.362][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.363][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.364][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.365][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.366][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.367][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.368][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:09.369][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:09.369][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.370][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.371][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.372][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-14 11:11:09.373][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.374][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.375][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.376][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.377][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.378][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.378][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:09.379][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:09.380][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.381][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.382][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.383][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.384][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.385][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.386][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.387][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.387][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.388][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.389][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.390][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.391][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.392][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.393][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.394][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.395][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.396][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.396][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.397][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2023-10-14 11:11:09.398][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.399][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.400][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:09.401][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2023-10-14 11:11:09.402][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:09.403][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:09.404][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.405][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.406][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.406][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.407][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.408][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.409][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:09.410][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:09.411][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.412][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.413][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.414][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.415][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.415][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.416][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.417][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.418][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.419][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.420][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.421][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.422][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.423][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.423][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.424][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.425][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.426][ef$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.427][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2023-10-14 11:11:09.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:09.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:09.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:09.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:09.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-14 11:11:09.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-14 11:11:09.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.439][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.443][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.447][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-14 11:11:09.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.450][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:09.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:09.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.454][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:09.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:09.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.458][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-14 11:11:09.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-14 11:11:09.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.462][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.466][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.478][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-14 11:11:09.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-14 11:11:09.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.494][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.497][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.501][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-14 11:11:09.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-14 11:11:09.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.505][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.508][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.512][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-14 11:11:09.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.519][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2023-10-14 11:11:09.520][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-14 11:11:09.521][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-14 11:11:09.526][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:11:09.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:11:09.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.529][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:11:09.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:11:09.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-14 11:11:09.533][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-14 11:11:09.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-14 11:11:09.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-14 11:11:09.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-14 11:11:09.540][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-14 11:11:09.541][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2023-10-14 11:11:09.542][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2023-10-14 11:11:09.543][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-14 11:11:09.544][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-14 11:11:09.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-14 11:11:09.545][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-14 11:11:09.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-14 11:11:09.547][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-14 11:11:09.548][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 371 ]
> 
> proc.time()
   user  system elapsed 
 50.620   4.507 198.903

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbLipidmaps_1.6.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.17-bioc-longtests/meat/biodbLipidmaps.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
* running under: Ubuntu 22.04.3 LTS
* 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 ‘1.6.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbLipidmaps’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbLipidmaps)