Back to Long Tests report for BioC 3.19

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

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

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

CHECK results for biodbLipidmaps on palomino7

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

raw results


Summary

Package: biodbLipidmaps
Version: 1.10.0
Command: E:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbLipidmaps_1.10.0.tar.gz
StartedAt: 2024-10-12 16:04:28 -0400 (Sat, 12 Oct 2024)
EndedAt: 2024-10-12 16:08:29 -0400 (Sat, 12 Oct 2024)
EllapsedTime: 241.0 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbLipidmaps.Rcheck
Warnings: 0

Tests output

biodbLipidmaps.Rcheck/tests/testthat.Rout


R version 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

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

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

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

> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbLipidmaps)
Warning message:
In fun(libname, pkgname) :
  Package 'biodbLipidmaps' is deprecated and will be removed from
  Bioconductor version 3.20
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbLipidmaps")
biodb.INFO [2024-10-12 16:05:10.580][biodb::testContext]
biodb.INFO [2024-10-12 16:05:10.583][biodb::testContext] ********************************************************************************
biodb.INFO [2024-10-12 16:05:10.584][biodb::testContext] Test context - Generic long tests
biodb.INFO [2024-10-12 16:05:10.586][biodb::testContext] ********************************************************************************
biodb.INFO [2024-10-12 16:05:10.587][biodb::testContext]
biodb.INFO [2024-10-12 16:05:10.594][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-10-12 16:05:10.596][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.19-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-10-12 16:05:10.633][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-10-12 16:05:10.635][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-10-12 16:05:10.636][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-10-12 16:05:10.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.641][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-10-12 16:05:10.672][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-10-12 16:05:10.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.675][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[2024-10-12 16:05:10.676][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-10-12 16:05:10.678][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-10-12 16:05:10.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.682][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-10-12 16:05:10.683][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-10-12 16:05:10.684][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-10-12 16:05:10.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.687][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[2024-10-12 16:05:10.689][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-10-12 16:05:10.690][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-10-12 16:05:10.691][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-10-12 16:05:10.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.695][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-10-12 16:05:10.696][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-10-12 16:05:10.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.701][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-10-12 16:05:10.702][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-10-12 16:05:10.703][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-10-12 16:05:10.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.707][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-10-12 16:05:10.708][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-10-12 16:05:10.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.713][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-10-12 16:05:10.714][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-10-12 16:05:10.715][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-10-12 16:05:10.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.719][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-10-12 16:05:10.720][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-10-12 16:05:10.722][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-10-12 16:05:10.723][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-10-12 16:05:10.724][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-10-12 16:05:10.725][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-10-12 16:05:10.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.728][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.DEBUG[2024-10-12 16:05:10.729][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-10-12 16:05:10.731][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-10-12 16:05:10.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.735][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-10-12 16:05:10.736][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-10-12 16:05:10.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.740][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-10-12 16:05:10.741][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-10-12 16:05:10.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.746][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-10-12 16:05:10.747][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-10-12 16:05:10.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.751][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-10-12 16:05:10.752][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-10-12 16:05:10.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.756][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-10-12 16:05:10.757][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-10-12 16:05:10.761][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-10-12 16:05:10.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.765][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-10-12 16:05:10.766][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-10-12 16:05:10.767][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-10-12 16:05:10.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.774][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-10-12 16:05:10.800][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-10-12 16:05:10.814][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-10-12 16:05:10.815][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.816][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-10-12 16:05:10.818][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.819][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-10-12 16:05:10.820][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-10-12 16:05:10.821][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-10-12 16:05:10.822][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-10-12 16:05:10.823][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-10-12 16:05:10.825][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.826][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-10-12 16:05:10.827][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-10-12 16:05:10.828][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:10.829][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.830][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-10-12 16:05:10.830][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-10-12 16:05:10.830][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-10-12 16:05:10.830][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-10-12 16:05:10.830][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-10-12 16:05:10.832][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-10-12 16:05:10.833][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:05:10.834][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:05:10.835][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-10-12 16:05:10.836][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:05:10.837][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:05:10.838][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-10-12 16:05:10.840][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:10.841][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-10-12 16:05:10.842][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-10-12 16:05:10.848][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-10-12 16:05:10.849][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:10.851][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-10-12 16:05:10.852][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-10-12 16:05:10.854][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-10-12 16:05:10.855][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.856][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-10-12 16:05:10.857][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.858][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-10-12 16:05:10.859][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-10-12 16:05:10.860][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-10-12 16:05:10.862][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-10-12 16:05:10.863][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-10-12 16:05:10.864][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.865][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-10-12 16:05:10.866][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-10-12 16:05:10.867][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:10.869][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.870][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-10-12 16:05:10.870][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-10-12 16:05:10.870][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-10-12 16:05:10.870][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-10-12 16:05:10.870][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-10-12 16:05:10.871][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-10-12 16:05:10.872][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:05:10.873][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:05:10.874][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-10-12 16:05:10.875][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:05:10.877][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:05:10.878][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-10-12 16:05:10.879][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:10.880][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-10-12 16:05:10.881][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-10-12 16:05:10.882][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-10-12 16:05:10.883][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:10.885][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-10-12 16:05:10.886][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.888][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-10-12 16:05:10.889][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.890][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-10-12 16:05:10.891][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.892][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-10-12 16:05:10.894][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-10-12 16:05:10.895][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-10-12 16:05:10.896][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-10-12 16:05:10.897][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-10-12 16:05:10.898][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-10-12 16:05:10.899][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-10-12 16:05:10.901][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-10-12 16:05:10.902][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:10.903][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.904][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:10.905][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-10-12 16:05:10.906][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:05:10.907][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:05:10.909][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-10-12 16:05:10.910][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:05:10.911][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:05:10.912][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-10-12 16:05:10.913][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:10.914][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-10-12 16:05:10.915][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-10-12 16:05:10.916][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-10-12 16:05:10.917][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:10.919][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-10-12 16:05:10.921][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.922][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-10-12 16:05:10.923][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.924][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-10-12 16:05:10.925][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.926][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-10-12 16:05:10.928][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-10-12 16:05:10.929][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-10-12 16:05:10.930][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-10-12 16:05:10.931][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-10-12 16:05:10.932][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-10-12 16:05:10.933][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-10-12 16:05:10.935][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-10-12 16:05:10.936][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:10.937][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:10.938][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:10.939][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-10-12 16:05:10.940][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:05:10.941][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:05:10.943][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-10-12 16:05:10.944][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:05:10.945][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:05:10.946][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-10-12 16:05:10.947][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:10.948][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-10-12 16:05:10.949][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-10-12 16:05:10.950][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-10-12 16:05:10.951][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:10.955][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-10-12 16:05:10.956][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:10.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:10.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:10.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:10.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.967][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[2024-10-12 16:05:10.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:10.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:10.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:10.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:10.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:10.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:10.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:10.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:10.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:10.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:10.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:10.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:10.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:10.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:10.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:10.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.042][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.DEBUG[2024-10-12 16:05:11.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.048][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-10-12 16:05:11.052][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-10-12 16:05:11.059][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-10-12 16:05:11.061][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-10-12 16:05:11.062][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-10-12 16:05:11.064][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-10-12 16:05:11.065][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-10-12 16:05:11.067][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-10-12 16:05:11.068][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-10-12 16:05:11.070][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-10-12 16:05:11.071][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-10-12 16:05:11.073][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-10-12 16:05:11.074][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-10-12 16:05:11.076][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-10-12 16:05:11.077][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-10-12 16:05:11.079][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-10-12 16:05:11.081][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-10-12 16:05:11.082][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-10-12 16:05:11.084][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-10-12 16:05:11.086][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-10-12 16:05:11.088][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-10-12 16:05:11.089][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-10-12 16:05:11.091][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-10-12 16:05:11.092][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-10-12 16:05:11.094][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-10-12 16:05:11.095][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-10-12 16:05:11.097][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-10-12 16:05:11.098][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-10-12 16:05:11.100][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-10-12 16:05:11.101][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-10-12 16:05:11.103][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-10-12 16:05:11.104][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-10-12 16:05:11.106][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-10-12 16:05:11.107][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-10-12 16:05:11.109][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-10-12 16:05:11.110][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-10-12 16:05:11.112][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-10-12 16:05:11.113][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-10-12 16:05:11.115][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-10-12 16:05:11.116][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-10-12 16:05:11.118][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-10-12 16:05:11.119][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-10-12 16:05:11.121][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-10-12 16:05:11.122][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-10-12 16:05:11.124][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-10-12 16:05:11.126][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-10-12 16:05:11.127][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-10-12 16:05:11.129][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-10-12 16:05:11.130][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-10-12 16:05:11.132][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-10-12 16:05:11.133][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-10-12 16:05:11.135][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-10-12 16:05:11.136][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-10-12 16:05:11.138][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-10-12 16:05:11.139][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-10-12 16:05:11.141][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-10-12 16:05:11.142][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-10-12 16:05:11.144][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-10-12 16:05:11.145][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-10-12 16:05:11.147][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-10-12 16:05:11.148][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-10-12 16:05:11.150][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-10-12 16:05:11.151][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-10-12 16:05:11.153][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-10-12 16:05:11.154][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-10-12 16:05:11.156][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-10-12 16:05:11.157][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-10-12 16:05:11.159][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-10-12 16:05:11.160][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-10-12 16:05:11.162][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-10-12 16:05:11.163][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-10-12 16:05:11.165][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-10-12 16:05:11.166][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-10-12 16:05:11.168][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-10-12 16:05:11.170][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-10-12 16:05:11.171][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-10-12 16:05:11.173][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-10-12 16:05:11.174][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-10-12 16:05:11.176][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-10-12 16:05:11.177][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-10-12 16:05:11.179][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-10-12 16:05:11.180][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-10-12 16:05:11.182][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-10-12 16:05:11.204][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-10-12 16:05:11.207][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-10-12 16:05:11.209][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-10-12 16:05:11.210][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.213][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.239][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.DEBUG[2024-10-12 16:05:11.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.261][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.DEBUG[2024-10-12 16:05:11.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.317][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.DEBUG[2024-10-12 16:05:11.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-10-12 16:05:11.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:11.349][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.19-bioc-longtests/meat/biodbLipidmaps.Rcheck/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2024-10-12 16:05:11.358][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2024-10-12 16:05:11.360][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-10-12 16:05:11.361][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-10-12 16:05:11.362][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:11.363][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-10-12 16:05:11.364][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:11.366][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-10-12 16:05:11.367][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:11.368][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-10-12 16:05:11.369][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-10-12 16:05:11.370][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-10-12 16:05:11.371][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:11.373][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2024-10-12 16:05:11.374][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-10-12 16:05:11.375][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2024-10-12 16:05:11.375][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2024-10-12 16:05:11.375][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2024-10-12 16:05:11.375][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2024-10-12 16:05:11.375][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2024-10-12 16:05:11.375][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2024-10-12 16:05:11.375][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2024-10-12 16:05:11.375][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2024-10-12 16:05:11.375][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2024-10-12 16:05:11.376][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-10-12 16:05:11.377][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-10-12 16:05:11.377][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-10-12 16:05:11.378][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-10-12 16:05:11.380][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:05:11.381][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:05:11.382][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-10-12 16:05:11.383][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-10-12 16:05:11.384][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-10-12 16:05:11.385][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-10-12 16:05:11.386][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2024-10-12 16:05:11.386][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2024-10-12 16:05:11.387][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-10-12 16:05:11.388][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-10-12 16:05:11.389][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-10-12 16:05:11.391][self$setPropertyValue]
biodb.DEBUG[2024-10-12 16:05:11.396][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2024-10-12 16:05:11.398][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-10-12 16:05:11.418][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2024-10-12 16:05:11.419][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2024-10-12 16:05:11.423][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2024-10-12 16:05:11.426][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2024-10-12 16:05:11.430][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2024-10-12 16:05:11.431][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2024-10-12 16:05:11.433][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2024-10-12 16:05:11.434][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2024-10-12 16:05:11.443][biodb::testThat]
biodb.INFO [2024-10-12 16:05:11.445][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-10-12 16:05:11.446][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:05:11.447][biodb::testThat]
biodb.TRACE[2024-10-12 16:05:11.451][loadFileContents] Loaded 1 files from cache: [1]: "E:/biocbuild/bbs-3.19-bioc-longtests/meat/biodbLipidmaps.Rcheck/biodbLipidmaps/testref/entry-lipidmaps.structure-LMFA00000001-content.tsv".
biodb.DEBUG[2024-10-12 16:05:11.453][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2024-10-12 16:05:11.457][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2024-10-12 16:05:11.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:11.464][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:11.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:11.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:11.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:11.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:11.536][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[2024-10-12 16:05:11.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:11.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:11.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.571][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:11.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:11.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.575][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:11.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:11.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.580][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:11.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:11.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.605][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:11.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:11.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.610][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:11.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:11.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.615][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:11.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:11.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.620][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:05:11.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:11.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.625][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:05:11.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:11.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.630][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:11.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:11.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.634][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:11.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:11.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:11.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:11.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.644][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:11.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:11.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.649][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:05:11.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:11.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.653][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2024-10-12 16:05:11.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:11.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.658][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:11.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:11.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.663][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:11.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:11.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.668][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:05:11.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:11.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.722][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:11.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:11.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.727][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:11.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:11.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.759][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:11.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:11.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.764][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:11.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:11.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.768][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:11.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:11.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.773][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:11.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:11.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.778][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:11.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:11.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.787][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:11.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:11.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:05:11.820][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA00000001.
biodb.TRACE[2024-10-12 16:05:11.823][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:05:11.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:05:11.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.828][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:05:11.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:05:11.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.833][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-10-12 16:05:11.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-10-12 16:05:11.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.837][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-10-12 16:05:11.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-10-12 16:05:11.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.885][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:11.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:11.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.926][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:11.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:11.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.930][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:11.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:11.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.935][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:11.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:11.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.963][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.964][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.966][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:11.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:11.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.982][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:11.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:11.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:11.987][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:11.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:11.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:11.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.001][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.005][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.007][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.009][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.010][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.024][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.034][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.039][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.044][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.045][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.046][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.048][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.049][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.063][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.068][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.073][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.078][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.079][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.081][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.082][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.112][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.113][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.116][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.131][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.136][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.141][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.146][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.147][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.149][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.150][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.165][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.167][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.169][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.175][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.177][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.179][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.186][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.187][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.189][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.196][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.197][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.200][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.207][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.208][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.210][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.222][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.223][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.225][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.243][loadFileContents] Loaded 1 files from cache: [1]: "E:/biocbuild/bbs-3.19-bioc-longtests/meat/biodbLipidmaps.Rcheck/biodbLipidmaps/testref/entry-lipidmaps.structure-LMFA00000002-content.tsv".
biodb.DEBUG[2024-10-12 16:05:12.273][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2024-10-12 16:05:12.275][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2024-10-12 16:05:12.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:12.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:12.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:12.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:12.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:12.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:12.289][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[2024-10-12 16:05:12.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.312][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:12.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:12.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.317][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:12.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:12.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.322][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.327][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.332][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.337][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.342][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:05:12.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.346][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:05:12.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.351][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.361][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.366][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.371][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.376][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:05:12.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.380][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2024-10-12 16:05:12.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.385][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.390][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.395][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:05:12.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.399][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:12.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:12.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.404][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:12.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:12.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.414][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:12.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:12.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:05:12.447][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA00000002.
biodb.TRACE[2024-10-12 16:05:12.465][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:05:12.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:05:12.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.470][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:05:12.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:05:12.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.475][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-10-12 16:05:12.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-10-12 16:05:12.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.479][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-10-12 16:05:12.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-10-12 16:05:12.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.496][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:12.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:12.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.541][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:12.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:12.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.546][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:12.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:12.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.551][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:12.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:12.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.587][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.588][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.590][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.606][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.611][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.616][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.620][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.622][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.624][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.625][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.639][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.644][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.649][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.654][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.655][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.657][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.659][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.673][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.678][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.683][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.693][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.694][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.696][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.697][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.727][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.728][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.730][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.762][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.763][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.765][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.781][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.786][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.791][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.796][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.797][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.799][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.800][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.815][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.816][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.819][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.825][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.827][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.829][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.836][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.837][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.840][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.847][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.848][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.850][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.857][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.858][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.861][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.867][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.869][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.871][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.883][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.884][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.886][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.894][loadFileContents] Loaded 1 files from cache: [1]: "E:/biocbuild/bbs-3.19-bioc-longtests/meat/biodbLipidmaps.Rcheck/biodbLipidmaps/testref/entry-lipidmaps.structure-LMFA08040013-content.tsv".
biodb.DEBUG[2024-10-12 16:05:12.895][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2024-10-12 16:05:12.897][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2024-10-12 16:05:12.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:12.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:12.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:12.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:12.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:12.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:12.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:05:12.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:12.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:12.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:12.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.934][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:12.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:12.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.939][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:12.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:12.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.944][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:12.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:12.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.949][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:12.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:12.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.954][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.958][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:12.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.963][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.968][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:12.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.973][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:05:12.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.977][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:05:12.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:12.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.982][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.987][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:12.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:12.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.992][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:12.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:12.997][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:12.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:12.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.001][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:05:13.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.006][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2024-10-12 16:05:13.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.011][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:13.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.015][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:13.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.020][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:05:13.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.025][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:13.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.030][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:13.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.035][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:13.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:13.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.044][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:13.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.054][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:13.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:13.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.059][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:13.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:13.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.068][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:13.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:13.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:05:13.102][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA08040013.
biodb.TRACE[2024-10-12 16:05:13.105][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:05:13.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:05:13.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.109][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:05:13.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:05:13.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.114][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-10-12 16:05:13.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-10-12 16:05:13.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.119][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-10-12 16:05:13.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-10-12 16:05:13.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.135][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:13.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:13.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.175][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:13.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:13.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.180][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:13.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:13.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.185][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:13.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:13.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.211][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.212][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.214][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.235][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:13.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.239][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:13.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:13.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.249][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:13.250][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.252][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.253][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:13.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.267][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:13.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:13.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.272][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:13.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:13.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.277][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:13.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:13.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.282][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:13.283][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:13.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.285][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.286][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:13.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:13.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.300][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:13.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:13.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.305][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:13.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:13.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.310][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:13.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:13.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.314][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:13.316][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:13.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.318][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.319][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:13.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:13.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.333][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:13.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:13.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.338][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:13.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:13.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.342][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:13.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:13.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.347][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:13.348][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:13.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.350][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.351][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:13.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:13.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:13.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:13.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:13.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:13.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:13.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:13.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.380][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:13.381][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:13.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.385][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:13.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:13.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.405][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:13.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:13.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.410][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:13.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:13.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.415][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:13.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:13.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.420][ef$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:13.421][ef$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:13.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.423][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.424][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:13.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:13.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.439][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:13.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:13.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.443][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:13.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:13.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.448][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:13.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:13.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.453][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:13.454][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:13.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.456][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.458][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:13.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:13.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:13.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:13.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:13.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:13.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:13.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:13.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.487][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:13.488][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:13.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.490][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:13.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:13.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.506][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:13.507][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:13.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.510][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.516][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:13.518][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:13.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.520][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.527][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:13.528][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:13.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.530][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.537][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:13.538][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:13.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.540][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.547][ef$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:13.548][ef$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:13.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.550][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.557][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:13.558][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:13.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.560][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.567][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:13.568][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:13.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.570][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.577][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:13.578][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:13.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.585][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:13.592][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:13.593][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:13.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:13.595][ef$get] fields variable is a list.
biodb.INFO [2024-10-12 16:05:13.607][biodb::testThat]
biodb.INFO [2024-10-12 16:05:13.608][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-10-12 16:05:13.609][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:05:13.611][biodb::testThat]
biodb.DEBUG[2024-10-12 16:05:13.613][private$loadEntries] Creating entries from ids [3]: "LMFA00000001, LMFA00000002, LMFA08040013".
biodb.DEBUG[2024-10-12 16:05:13.619][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 3 id(s)...
biodb.TRACE[2024-10-12 16:05:13.625][cch$loadFileContent] Trying to load 3 files from cache: [3]: "LMFA00000001, LMFA00000002, LMFA08040013".
biodb.INFO [2024-10-12 16:05:13.626][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b" for "lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b".
biodb.TRACE[2024-10-12 16:05:13.628][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2024-10-12 16:05:13.630][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-10-12 16:05:13.631][conn$getEntryContent] 0 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2024-10-12 16:05:13.632][conn$getEntryContent] 3 entry content(s) need to be fetched from LIPID MAPS Structure database "https://www.lipidmaps.org/data/".
biodb.DEBUG[2024-10-12 16:05:13.633][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-10-12 16:05:13.634][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-10-12 16:05:13.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:13.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:13.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:13.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:13.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:13.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:13.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:13.663][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA00000001?format=tsv".
biodb.DEBUG[2024-10-12 16:05:13.681][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:05:13.682][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:05:13.683][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA00000001?format=tsv".
biodb.TRACE[2024-10-12 16:05:15.164][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/LMFA00000001?format=tsv does not exist.
biodb.TRACE[2024-10-12 16:05:15.165][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:05:15.166][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/LMFA00000001?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:05:15.168][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA00000001?format=tsv).
biodb.DEBUG[2024-10-12 16:05:16.920][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:05:16.922][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f441f4b59d8c1fbcb63f4f502d20d459.content"
biodb.TRACE[2024-10-12 16:05:16.936][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f441f4b59d8c1fbcb63f4f502d20d459.request"
biodb.DEBUG[2024-10-12 16:05:16.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:16.940][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:16.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:16.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:16.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:16.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:16.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:16.977][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA00000002?format=tsv".
biodb.DEBUG[2024-10-12 16:05:16.990][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:05:16.992][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:05:17.005][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA00000002?format=tsv".
biodb.TRACE[2024-10-12 16:05:17.742][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/LMFA00000002?format=tsv does not exist.
biodb.TRACE[2024-10-12 16:05:17.744][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:05:17.745][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/LMFA00000002?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:05:17.746][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA00000002?format=tsv).
biodb.DEBUG[2024-10-12 16:05:19.862][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:05:19.866][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/a989db4a318873c598872a885a94e78c.content"
biodb.TRACE[2024-10-12 16:05:19.871][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/a989db4a318873c598872a885a94e78c.request"
biodb.DEBUG[2024-10-12 16:05:19.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:19.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:19.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:19.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:19.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:19.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:19.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:19.887][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA08040013?format=tsv".
biodb.DEBUG[2024-10-12 16:05:19.890][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:05:19.891][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:05:19.893][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA08040013?format=tsv".
biodb.TRACE[2024-10-12 16:05:20.636][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/LMFA08040013?format=tsv does not exist.
biodb.TRACE[2024-10-12 16:05:20.637][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:05:20.639][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/LMFA08040013?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:05:20.640][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA08040013?format=tsv).
biodb.DEBUG[2024-10-12 16:05:21.951][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:05:21.953][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/0fdeb15a49cfc75bfed9dd3f524ffa41.content"
biodb.TRACE[2024-10-12 16:05:21.958][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/0fdeb15a49cfc75bfed9dd3f524ffa41.request"
biodb.TRACE[2024-10-12 16:05:21.961][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000001.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000002.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA08040013.tsv"
biodb.DEBUG[2024-10-12 16:05:21.965][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-10-12 16:05:21.966][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 3 content(s).
biodb.DEBUG[2024-10-12 16:05:21.968][self$createEntryFromContent] Parsing 3 LIPID MAPS Structure entries.
biodb.DEBUG[2024-10-12 16:05:21.969][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:21.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:21.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:21.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:21.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:21.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:21.987][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.TRACE[2024-10-12 16:05:21.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:21.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:21.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:21.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:21.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:21.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:21.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:22.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:22.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:22.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:22.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.011][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:22.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:22.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.016][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:22.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:22.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.020][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:22.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:22.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.025][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:22.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:22.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.030][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:22.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:22.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.035][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:22.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:22.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.040][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:05:22.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:22.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.044][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:05:22.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:22.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.049][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:22.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:22.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.054][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:22.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:22.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.059][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.064][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.069][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:05:22.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.074][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2024-10-12 16:05:22.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.079][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.084][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.089][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:05:22.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.094][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.099][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.108][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.113][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.118][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.123][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.127][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.137][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:05:22.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:22.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:22.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:22.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:22.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:22.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:22.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:05:22.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:22.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:22.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:22.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:22.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.191][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:22.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:22.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.196][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:22.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:22.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.201][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:22.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:22.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.206][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:22.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:22.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.210][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:22.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:22.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.215][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:22.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:22.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.220][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:05:22.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:22.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.225][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:05:22.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:22.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.230][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:22.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:22.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.240][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:22.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:22.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.245][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.249][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.254][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:05:22.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.259][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2024-10-12 16:05:22.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.264][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.269][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.274][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:05:22.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.278][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.283][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.293][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:05:22.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:22.313][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:22.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:22.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:22.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:22.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:22.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:05:22.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:22.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:22.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:22.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:22.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.347][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:22.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:22.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.352][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:22.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:22.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.357][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:22.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:22.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.367][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:22.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:22.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.372][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:22.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:22.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.377][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:22.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:22.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.382][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:22.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:22.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.386][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:22.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:22.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.391][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:05:22.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:22.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.396][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:05:22.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:22.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.401][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:22.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:22.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.406][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:22.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:22.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.411][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.415][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.420][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:05:22.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.425][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2024-10-12 16:05:22.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.430][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.434][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.439][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:05:22.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.444][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.449][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.454][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.459][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.463][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.468][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.473][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.482][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:22.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:22.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:22.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:05:22.549][self$createEntryFromContent] Accession numbers: LMFA00000001, LMFA00000002, LMFA08040013.
biodb.TRACE[2024-10-12 16:05:22.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-10-12 16:05:22.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-10-12 16:05:22.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-10-12 16:05:22.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-10-12 16:05:22.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-10-12 16:05:22.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-10-12 16:05:22.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-10-12 16:05:22.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-10-12 16:05:22.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-10-12 16:05:22.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-10-12 16:05:22.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-10-12 16:05:22.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-10-12 16:05:22.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-10-12 16:05:22.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-10-12 16:05:22.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-10-12 16:05:22.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-10-12 16:05:22.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-10-12 16:05:22.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-10-12 16:05:22.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-10-12 16:05:22.615][biodb::testThat]
biodb.INFO [2024-10-12 16:05:22.616][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-10-12 16:05:22.617][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:05:22.619][biodb::testThat]
biodb.TRACE[2024-10-12 16:05:22.627][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.628][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.630][ef$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:05:22.632][function(conn, opt)] Testing searchForEntries() with entry "LMFA00000001" and field "name".
biodb.TRACE[2024-10-12 16:05:22.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.666][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:22.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:22.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:22.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:22.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:05:22.678][function(conn, opt)] With value "2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2024-10-12 16:05:22.681][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2024-10-12 16:05:22.684][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:05:22.686][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:05:22.688][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride".
biodb.TRACE[2024-10-12 16:05:23.436][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride does not exist.
biodb.TRACE[2024-10-12 16:05:23.438][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:05:23.439][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:05:23.441][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride).
biodb.DEBUG[2024-10-12 16:05:24.733][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:05:24.736][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content"
biodb.TRACE[2024-10-12 16:05:24.741][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.request"
biodb.DEBUG[2024-10-12 16:05:24.744][function(conn, opt)] With found IDs [1]: "LMFA00000001".
biodb.TRACE[2024-10-12 16:05:24.761][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:24.763][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:24.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:24.765][ef$get] fields variable is a list.
biodb.INFO [2024-10-12 16:05:24.772][biodb::testThat]
biodb.INFO [2024-10-12 16:05:24.773][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-10-12 16:05:24.774][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:05:24.775][biodb::testThat]
biodb.TRACE[2024-10-12 16:05:24.807][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:24.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:24.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:24.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:24.812][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:24.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:24.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:24.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:24.817][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:24.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:24.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:24.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:05:24.913][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2024-10-12 16:05:24.917][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:05:24.930][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2024-10-12 16:05:24.932][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:05:24.936][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.INFO [2024-10-12 16:05:24.960][biodb::testThat]
biodb.INFO [2024-10-12 16:05:24.961][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-10-12 16:05:24.962][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:05:24.963][biodb::testThat]
biodb.TRACE[2024-10-12 16:05:24.976][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:05:24.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:05:24.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:24.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:24.981][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:05:24.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:05:24.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:24.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:24.986][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-10-12 16:05:24.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-10-12 16:05:24.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:24.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:24.991][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-10-12 16:05:24.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-10-12 16:05:24.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:24.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:25.029][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:05:25.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:05:25.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:25.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:25.034][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-10-12 16:05:25.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-10-12 16:05:25.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:25.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:25.038][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-10-12 16:05:25.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-10-12 16:05:25.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:25.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:25.043][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-10-12 16:05:25.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-10-12 16:05:25.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:25.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-10-12 16:05:25.056][biodb::testThat]
biodb.INFO [2024-10-12 16:05:25.057][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-10-12 16:05:25.058][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:05:25.059][biodb::testThat]
biodb.INFO [2024-10-12 16:05:25.071][biodb::testThat]
biodb.INFO [2024-10-12 16:05:25.072][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-10-12 16:05:25.073][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:05:25.075][biodb::testThat]
biodb.INFO [2024-10-12 16:05:25.086][biodb::testThat]
biodb.INFO [2024-10-12 16:05:25.087][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-10-12 16:05:25.088][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:05:25.089][biodb::testThat]
biodb.DEBUG[2024-10-12 16:05:25.094][function(conn, opt)] Trying to download "https://www.lipidmaps.org/data?LMID=LMFA00000001".
biodb.DEBUG[2024-10-12 16:05:27.294][getUrlContent] Use base::url() for downloading content of URL https://www.lipidmaps.org/data?LMID=LMFA00000001.
biodb.INFO [2024-10-12 16:05:29.909][biodb::testThat]
biodb.INFO [2024-10-12 16:05:29.910][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-10-12 16:05:29.911][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:05:29.912][biodb::testThat]
biodb.TRACE[2024-10-12 16:05:29.921][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:29.923][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:29.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:29.931][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:29.932][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:29.933][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:29.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:29.936][ef$get] fields variable is a list.
biodb.INFO [2024-10-12 16:05:29.938][biodb::testThat]
biodb.INFO [2024-10-12 16:05:29.939][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2024-10-12 16:05:29.940][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:05:29.942][biodb::testThat]
biodb.TRACE[2024-10-12 16:05:29.957][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:29.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:29.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:29.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:29.962][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:29.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:29.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:29.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:29.967][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:29.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:29.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:29.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:05:30.051][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2024-10-12 16:05:30.055][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:05:30.056][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2024-10-12 16:05:30.058][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:05:30.060][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.DEBUG[2024-10-12 16:05:30.138][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2024-10-12 16:05:30.141][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:05:30.143][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2024-10-12 16:05:30.145][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:05:30.147][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.TRACE[2024-10-12 16:05:30.172][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:05:30.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:05:30.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:30.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:30.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:05:30.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:05:30.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:30.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:30.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:30.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:30.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:30.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:30.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:30.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:30.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:30.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:30.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:30.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:30.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:30.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:30.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:30.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:30.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:30.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:30.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:30.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:30.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:30.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:05:30.224][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.DEBUG[2024-10-12 16:05:30.228][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:05:30.229][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:05:30.231][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.TRACE[2024-10-12 16:05:30.972][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=1e-06 does not exist.
biodb.TRACE[2024-10-12 16:05:30.973][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:05:30.976][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=1e-06" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:05:30.978][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=1e-06).
biodb.DEBUG[2024-10-12 16:05:36.523][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:05:36.527][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/304383a7dc8c451be84009e31d831359.content"
biodb.TRACE[2024-10-12 16:05:36.635][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/304383a7dc8c451be84009e31d831359.request"
biodb.DEBUG[2024-10-12 16:05:38.241][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.DEBUG[2024-10-12 16:05:38.246][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:05:38.247][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:05:38.249][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.TRACE[2024-10-12 16:05:39.705][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491025&ExactMassOffSet=1e-06 does not exist.
biodb.TRACE[2024-10-12 16:05:39.707][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:05:39.709][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491025&ExactMassOffSet=1e-06" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:05:39.711][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491025&ExactMassOffSet=1e-06).
biodb.DEBUG[2024-10-12 16:05:41.022][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:05:41.025][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/7f71825f1888a7b29e4b8407502d21e3.content"
biodb.TRACE[2024-10-12 16:05:41.030][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/7f71825f1888a7b29e4b8407502d21e3.request"
biodb.DEBUG[2024-10-12 16:05:41.059][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride&ExactMass=626.491026&ExactMassOffSet=2e-06".
biodb.DEBUG[2024-10-12 16:05:41.062][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:05:41.064][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:05:41.066][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491026&ExactMassOffSet=2e-06".
biodb.TRACE[2024-10-12 16:05:41.805][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491026&ExactMassOffSet=2e-06 does not exist.
biodb.TRACE[2024-10-12 16:05:41.807][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:05:41.809][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491026&ExactMassOffSet=2e-06" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:05:41.811][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491026&ExactMassOffSet=2e-06).
biodb.DEBUG[2024-10-12 16:05:43.117][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:05:43.120][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/fd41c675dd237f33cdaafcbb15058c54.content"
biodb.TRACE[2024-10-12 16:05:43.125][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/fd41c675dd237f33cdaafcbb15058c54.request"
biodb.TRACE[2024-10-12 16:05:43.150][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:05:43.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:05:43.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-10-12 16:05:43.166][biodb::testThat]
biodb.INFO [2024-10-12 16:05:43.167][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-10-12 16:05:43.169][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:05:43.170][biodb::testThat]
biodb.TRACE[2024-10-12 16:05:43.173][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:05:43.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:05:43.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.178][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:05:43.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:05:43.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.183][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:05:43.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:05:43.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:05:43.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:05:43.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:05:43.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:05:43.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:05:43.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:05:43.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:43.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:43.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:43.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:05:43.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:43.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:43.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:43.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:43.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:43.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:43.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:43.290][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:05:43.294][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:05:43.295][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:05:43.298][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.TRACE[2024-10-12 16:05:44.034][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01 does not exist.
biodb.TRACE[2024-10-12 16:05:44.036][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:05:44.039][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:05:44.041][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01).
biodb.DEBUG[2024-10-12 16:05:49.652][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:05:49.655][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content"
biodb.TRACE[2024-10-12 16:05:49.742][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.request"
biodb.DEBUG[2024-10-12 16:05:51.109][private$loadEntries] Creating entries from ids [1]: "LMFA00000003".
biodb.DEBUG[2024-10-12 16:05:51.148][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2024-10-12 16:05:51.150][cch$loadFileContent] Trying to load 1 files from cache: [1]: "LMFA00000003".
biodb.TRACE[2024-10-12 16:05:51.152][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-10-12 16:05:51.153][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-10-12 16:05:51.154][conn$getEntryContent] 0 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2024-10-12 16:05:51.155][conn$getEntryContent] 1 entry content(s) need to be fetched from LIPID MAPS Structure database "https://www.lipidmaps.org/data/".
biodb.DEBUG[2024-10-12 16:05:51.157][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-10-12 16:05:51.158][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-10-12 16:05:51.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:51.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:51.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:51.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:51.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:51.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:51.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:51.184][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA00000003?format=tsv".
biodb.DEBUG[2024-10-12 16:05:51.187][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:05:51.189][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:05:51.190][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA00000003?format=tsv".
biodb.TRACE[2024-10-12 16:05:51.928][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/LMFA00000003?format=tsv does not exist.
biodb.TRACE[2024-10-12 16:05:51.929][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:05:51.931][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/LMFA00000003?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:05:51.933][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA00000003?format=tsv).
biodb.DEBUG[2024-10-12 16:05:53.247][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:05:53.250][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f88961343869f5da5bc09cbcc0e6185e.content"
biodb.TRACE[2024-10-12 16:05:53.254][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f88961343869f5da5bc09cbcc0e6185e.request"
biodb.TRACE[2024-10-12 16:05:53.258][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000003.tsv"
biodb.DEBUG[2024-10-12 16:05:53.260][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-10-12 16:05:53.262][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2024-10-12 16:05:53.263][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2024-10-12 16:05:53.265][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:53.266][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:53.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:53.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:53.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:53.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:53.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:05:53.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:53.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:53.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:53.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:53.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:05:53.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:05:53.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.296][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:53.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-10-12 16:05:53.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.300][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:53.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-10-12 16:05:53.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.305][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:53.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:53.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.310][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:53.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:05:53.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.315][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:53.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:53.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.320][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:53.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:05:53.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.325][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:05:53.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:53.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.329][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2024-10-12 16:05:53.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:05:53.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.334][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:53.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:53.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.339][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:05:53.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:05:53.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.344][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:53.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:53.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:53.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:53.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.353][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:05:53.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:53.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.358][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2024-10-12 16:05:53.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:53.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.363][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:53.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:53.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:05:53.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:53.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.374][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2024-10-12 16:05:53.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:05:53.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.379][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.384][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:53.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:53.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.394][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:53.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:53.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:53.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:53.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:53.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:53.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:53.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:53.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:53.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:53.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:05:53.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:05:53.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:05:53.431][self$createEntryFromContent] Accession numbers: LMFA00000003.
biodb.DEBUG[2024-10-12 16:05:53.441][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:05:53.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:53.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:53.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:53.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:53.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:53.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:53.456][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.TRACE[2024-10-12 16:05:53.458][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.463][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.468][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:05:53.469][private$selectFields]
biodb.TRACE[2024-10-12 16:05:53.471][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:05:53.472][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:05:53.473][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:05:53.474][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.476][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.478][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.480][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.481][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.483][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.485][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:05:53.486][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:05:53.487][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.489][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.491][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.492][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:05:53.494][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.499][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.505][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.533][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:05:53.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:53.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:53.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:53.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:53.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:53.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:53.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:05:53.548][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.553][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.557][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:05:53.558][private$selectFields]
biodb.TRACE[2024-10-12 16:05:53.560][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:05:53.561][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:05:53.562][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:05:53.563][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.564][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.566][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.568][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.569][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.571][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.572][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:05:53.573][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:05:53.574][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.576][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.578][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.579][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:05:53.580][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.585][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.589][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.594][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:05:53.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:53.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:53.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:53.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:53.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:53.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:53.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:05:53.609][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.614][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.618][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:05:53.619][private$selectFields]
biodb.TRACE[2024-10-12 16:05:53.620][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:05:53.622][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:05:53.623][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:05:53.624][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.625][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.627][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.628][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.630][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.632][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.633][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:05:53.634][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:05:53.635][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.637][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.639][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.640][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:05:53.641][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.646][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.651][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:05:53.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:05:53.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:05:53.656][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:05:53.657][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:05:53.658][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:05:53.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:05:53.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:05:53.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:05:53.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:05:53.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:05:53.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:05:53.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:05:53.677][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:05:53.680][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:05:53.682][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:05:53.684][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.TRACE[2024-10-12 16:05:54.437][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01 does not exist.
biodb.TRACE[2024-10-12 16:05:54.438][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:05:54.440][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:05:54.442][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01).
biodb.DEBUG[2024-10-12 16:06:01.797][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:06:01.800][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content"
biodb.TRACE[2024-10-12 16:06:02.074][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.request"
biodb.DEBUG[2024-10-12 16:06:03.452][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:06:03.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:03.473][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:03.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:03.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:03.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:03.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:03.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:03.495][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.500][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.524][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:03.525][private$selectFields]
biodb.TRACE[2024-10-12 16:06:03.526][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:03.527][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:03.528][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:03.530][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.531][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.533][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.534][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.535][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.538][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.539][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:03.548][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:03.549][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.550][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.553][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.554][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:03.555][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.560][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.564][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.569][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:06:03.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:03.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:03.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:03.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:03.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:03.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:03.583][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[2024-10-12 16:06:03.584][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.589][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.593][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:03.595][private$selectFields]
biodb.TRACE[2024-10-12 16:06:03.596][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:03.597][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:03.598][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:03.599][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.600][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.602][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.604][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.605][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.607][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.608][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:03.610][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:03.611][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.612][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.613][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.614][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.615][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:03.617][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.621][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.626][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.631][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:06:03.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:03.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:03.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:03.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:03.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:03.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:03.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:03.646][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.651][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.655][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:03.656][private$selectFields]
biodb.TRACE[2024-10-12 16:06:03.657][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:03.658][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:03.660][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:03.661][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.662][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.664][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.665][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.667][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.668][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.669][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.670][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:03.671][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:03.672][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.673][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.676][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.677][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:03.678][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.683][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.687][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:03.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:03.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:03.693][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:06:03.694][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:06:03.695][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:06:03.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:03.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:03.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:03.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:03.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:03.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:03.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:06:03.714][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:06:03.717][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:06:03.718][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:06:03.721][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.TRACE[2024-10-12 16:06:04.472][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01 does not exist.
biodb.TRACE[2024-10-12 16:06:04.473][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:06:04.476][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:06:04.478][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01).
biodb.DEBUG[2024-10-12 16:06:10.239][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:06:10.242][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content"
biodb.TRACE[2024-10-12 16:06:10.327][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.request"
biodb.DEBUG[2024-10-12 16:06:11.671][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:06:11.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:11.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:11.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:11.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:11.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:11.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:11.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:11.687][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.691][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.696][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:11.697][private$selectFields]
biodb.TRACE[2024-10-12 16:06:11.698][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:11.699][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:11.700][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:11.701][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.703][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.705][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.706][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.707][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.709][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.711][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:11.712][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:11.713][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.714][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.716][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.717][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:11.718][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.723][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.728][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.733][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:06:11.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:11.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:11.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:11.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:11.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:11.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:11.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:11.747][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.752][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.756][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:11.758][private$selectFields]
biodb.TRACE[2024-10-12 16:06:11.778][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:11.780][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:11.781][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:11.782][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.783][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.785][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.786][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.788][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.790][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.791][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:11.792][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:11.793][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.794][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.797][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.798][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:11.799][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.804][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.808][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.813][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:06:11.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:11.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:11.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:11.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:11.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:11.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:11.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:11.828][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.832][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.837][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:11.838][private$selectFields]
biodb.TRACE[2024-10-12 16:06:11.839][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:11.840][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:11.841][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:11.843][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.844][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.846][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.847][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.848][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.850][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.852][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:11.853][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:11.854][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.855][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.857][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.858][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:11.860][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.864][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.869][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:11.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.874][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:06:11.875][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:06:11.876][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-10-12 16:06:11.886][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:11.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:11.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.891][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:11.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:11.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.896][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:11.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:11.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-10-12 16:06:11.906][biodb::testThat]
biodb.INFO [2024-10-12 16:06:11.907][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-10-12 16:06:11.908][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:06:11.909][biodb::testThat]
biodb.TRACE[2024-10-12 16:06:11.913][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:06:11.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:06:11.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.918][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:06:11.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:06:11.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.923][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:06:11.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:06:11.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:11.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:11.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:11.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:11.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:11.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:11.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:11.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:11.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:11.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:06:12.042][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:12.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:12.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:12.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:12.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:12.053][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:12.055][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.DEBUG[2024-10-12 16:06:12.058][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.009397365375".
biodb.DEBUG[2024-10-12 16:06:12.062][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:06:12.063][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:06:12.065][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.009397365375".
biodb.TRACE[2024-10-12 16:06:12.811][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.009397365375 does not exist.
biodb.TRACE[2024-10-12 16:06:12.812][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:06:12.814][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.009397365375" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:06:12.816][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.009397365375).
biodb.DEBUG[2024-10-12 16:06:18.379][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:06:18.382][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/5652f5994fce967a05a065a71bac3ed6.content"
biodb.TRACE[2024-10-12 16:06:18.484][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/5652f5994fce967a05a065a71bac3ed6.request"
biodb.DEBUG[2024-10-12 16:06:19.815][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:06:19.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:19.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:19.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:19.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:19.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:19.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:19.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:19.831][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.836][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.841][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:19.842][private$selectFields]
biodb.TRACE[2024-10-12 16:06:19.843][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:19.844][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:19.846][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:19.847][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.848][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.850][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.852][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.853][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.855][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.856][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:19.857][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:19.858][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.860][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.862][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.863][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:19.864][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.869][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.874][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.878][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:06:19.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:19.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:19.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:19.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:19.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:19.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:19.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:19.893][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.898][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.902][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:19.904][private$selectFields]
biodb.TRACE[2024-10-12 16:06:19.905][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:19.906][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:19.907][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:19.908][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.909][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.911][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.913][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.914][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.916][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.917][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:19.918][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:19.919][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.921][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.923][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.924][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:19.925][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.930][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.935][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.940][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:06:19.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:19.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:19.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:19.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:19.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:19.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:19.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:19.955][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.960][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.965][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:19.966][private$selectFields]
biodb.TRACE[2024-10-12 16:06:19.967][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:19.968][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:19.969][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:19.970][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.972][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.974][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.975][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.976][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.979][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.980][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:19.981][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:19.982][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.984][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.986][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.987][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:19.988][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.993][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:19.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:19.998][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:19.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:20.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:20.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:20.003][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:06:20.004][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:06:20.005][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:06:20.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:20.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:20.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:20.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:20.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:20.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:20.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:06:20.023][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.00412759911".
biodb.DEBUG[2024-10-12 16:06:20.026][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:06:20.027][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:06:20.030][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.00412759911".
biodb.TRACE[2024-10-12 16:06:20.765][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.00412759911 does not exist.
biodb.TRACE[2024-10-12 16:06:20.767][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:06:20.768][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.00412759911" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:06:20.770][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.00412759911).
biodb.DEBUG[2024-10-12 16:06:27.576][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:06:27.579][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/caf6ace8482be3630c2e179e272c9f63.content"
biodb.TRACE[2024-10-12 16:06:28.407][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/caf6ace8482be3630c2e179e272c9f63.request"
biodb.DEBUG[2024-10-12 16:06:29.728][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:06:29.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:29.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:29.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:29.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:29.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:29.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:29.769][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[2024-10-12 16:06:29.771][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.775][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.780][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:29.781][private$selectFields]
biodb.TRACE[2024-10-12 16:06:29.782][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:29.783][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:29.784][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:29.786][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.787][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.789][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.790][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.791][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.793][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.795][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:29.796][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:29.797][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.798][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.800][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.801][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:29.802][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.807][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.812][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.820][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:06:29.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:29.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:29.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:29.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:29.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:29.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:29.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:29.837][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.841][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.846][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:29.847][private$selectFields]
biodb.TRACE[2024-10-12 16:06:29.848][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:29.850][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:29.851][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:29.852][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.853][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.855][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.857][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.858][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.860][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.861][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:29.862][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:29.863][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.865][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.867][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.868][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:29.869][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.874][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.878][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.883][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:06:29.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:29.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:29.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:29.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:29.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:29.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:29.897][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[2024-10-12 16:06:29.898][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.903][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.908][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:29.909][private$selectFields]
biodb.TRACE[2024-10-12 16:06:29.910][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:29.911][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:29.912][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:29.913][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.914][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.917][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.918][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.919][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.921][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.922][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:29.924][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:29.925][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.926][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.928][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.929][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:29.931][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.935][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.940][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:29.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:29.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:29.945][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:06:29.946][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:06:29.948][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:06:29.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:29.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:29.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:29.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:29.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:29.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:29.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:06:29.966][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.004489236435".
biodb.DEBUG[2024-10-12 16:06:29.970][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:06:29.971][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:06:29.973][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.004489236435".
biodb.TRACE[2024-10-12 16:06:30.712][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.004489236435 does not exist.
biodb.TRACE[2024-10-12 16:06:30.714][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:06:30.716][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.004489236435" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:06:30.719][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.004489236435).
biodb.DEBUG[2024-10-12 16:06:36.260][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:06:36.263][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/8b6f4df3787f4a46fc24f669a9568b94.content"
biodb.TRACE[2024-10-12 16:06:36.349][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/8b6f4df3787f4a46fc24f669a9568b94.request"
biodb.DEBUG[2024-10-12 16:06:38.365][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:06:38.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:38.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:38.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:38.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:38.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:38.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:38.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:38.381][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.386][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.390][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:38.391][private$selectFields]
biodb.TRACE[2024-10-12 16:06:38.393][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:38.394][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:38.395][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:38.396][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.397][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.398][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.399][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.401][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.402][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.404][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.405][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:38.406][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:38.408][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.409][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.411][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.412][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:38.414][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.418][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.423][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.428][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:06:38.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:38.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:38.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:38.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:38.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:38.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:38.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:38.443][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.448][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.453][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:38.474][private$selectFields]
biodb.TRACE[2024-10-12 16:06:38.475][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:38.476][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:38.477][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:38.479][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.480][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.482][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.483][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.484][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.487][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.488][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:38.489][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:38.490][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.491][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.494][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.495][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:38.496][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.501][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.506][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.511][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:06:38.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:38.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:38.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:38.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:38.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:38.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:38.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:38.526][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.530][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.535][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:38.536][private$selectFields]
biodb.TRACE[2024-10-12 16:06:38.537][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:38.538][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:38.540][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:38.541][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.542][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.544][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.545][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.547][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.549][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.550][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:38.551][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:38.552][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.553][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.556][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.557][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:38.558][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.563][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.567][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:38.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.572][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:06:38.574][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:06:38.575][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-10-12 16:06:38.585][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:38.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:38.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.590][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:38.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:38.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.595][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:38.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:38.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-10-12 16:06:38.605][biodb::testThat]
biodb.INFO [2024-10-12 16:06:38.606][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-10-12 16:06:38.608][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:06:38.609][biodb::testThat]
biodb.TRACE[2024-10-12 16:06:38.613][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:06:38.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:06:38.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.617][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:06:38.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:06:38.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.622][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:06:38.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:06:38.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:38.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:38.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:38.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:38.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:38.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:38.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:38.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:38.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:38.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:06:38.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:38.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:38.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:38.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:38.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:38.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:38.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:06:38.720][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:06:38.724][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:06:38.725][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2024-10-12 16:06:38.727][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:06:38.851][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2024-10-12 16:06:40.432][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:06:40.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:40.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:40.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:40.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:40.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:40.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:40.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:40.448][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.453][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.458][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:40.459][private$selectFields]
biodb.TRACE[2024-10-12 16:06:40.460][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:40.461][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:40.462][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:40.463][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.465][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.467][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.468][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.469][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.472][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.473][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:40.474][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:40.475][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.477][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.479][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.480][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:40.481][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.486][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.491][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.496][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:06:40.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:40.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:40.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:40.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:40.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:40.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:40.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:40.510][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.515][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.520][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:40.521][private$selectFields]
biodb.TRACE[2024-10-12 16:06:40.522][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:40.523][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:40.524][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:40.525][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.526][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.528][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.530][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.531][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.533][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.534][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:40.535][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:40.536][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.538][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.540][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.541][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:40.542][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.547][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.551][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.556][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:06:40.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:40.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:40.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:40.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:40.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:40.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:40.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:40.571][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.575][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.580][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:40.581][private$selectFields]
biodb.TRACE[2024-10-12 16:06:40.582][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:40.583][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:40.584][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:40.585][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.587][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.589][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.590][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.591][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.593][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.595][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:40.596][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:40.597][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.598][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.600][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.602][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:40.603][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.607][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.612][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:40.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:40.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:40.617][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:06:40.618][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:06:40.619][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:06:40.621][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:40.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:40.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:40.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:40.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:40.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:40.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:06:40.637][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:06:40.641][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:06:40.642][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2024-10-12 16:06:40.644][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:06:40.765][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2024-10-12 16:06:42.106][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:06:42.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:42.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:42.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:42.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:42.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:42.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:42.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:42.121][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.126][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.130][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:42.131][private$selectFields]
biodb.TRACE[2024-10-12 16:06:42.133][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:42.134][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:42.135][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:42.136][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.137][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.138][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.139][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.141][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.142][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.144][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.145][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:42.146][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:42.147][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.149][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.151][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.152][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:42.153][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.158][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.162][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.167][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:06:42.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:42.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:42.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:42.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:42.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:42.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:42.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:42.182][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.187][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.191][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:42.192][private$selectFields]
biodb.TRACE[2024-10-12 16:06:42.193][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:42.195][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:42.196][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:42.197][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.198][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.200][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.201][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.203][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.205][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.206][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:42.207][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:42.208][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.209][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.212][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.213][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:42.214][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.219][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.223][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.228][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:06:42.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:42.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:42.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:42.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:42.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:42.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:42.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:42.243][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.248][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.253][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:42.254][private$selectFields]
biodb.TRACE[2024-10-12 16:06:42.255][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:42.256][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:42.257][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:42.258][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.260][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.262][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.263][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.264][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.266][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.268][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:42.269][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:42.270][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.271][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.273][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.274][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:42.276][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.280][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.285][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:42.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:42.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:42.290][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:06:42.291][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:06:42.292][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:06:42.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:42.295][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:42.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:42.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:42.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:42.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:42.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:06:42.310][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:06:42.313][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:06:42.315][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2024-10-12 16:06:42.316][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:06:42.450][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2024-10-12 16:06:43.800][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:06:43.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:43.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:43.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:43.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:43.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:43.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:43.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:43.816][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.821][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.826][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:43.827][private$selectFields]
biodb.TRACE[2024-10-12 16:06:43.828][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:43.829][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:43.830][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:43.831][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.833][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.835][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.836][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.837][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.839][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.841][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:43.842][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:43.843][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.844][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.846][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.847][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:43.849][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.853][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.858][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.864][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:06:43.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:43.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:43.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:43.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:43.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:43.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:43.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:43.879][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.884][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.889][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:43.890][private$selectFields]
biodb.TRACE[2024-10-12 16:06:43.891][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:43.892][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:43.893][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:43.894][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.895][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.898][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.899][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.900][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.902][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.903][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:43.905][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:43.906][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.907][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.909][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.910][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:43.912][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.916][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.921][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.926][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:06:43.927][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:43.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:43.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:43.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:43.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:43.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:43.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:06:43.941][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.945][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.950][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:43.951][private$selectFields]
biodb.TRACE[2024-10-12 16:06:43.952][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:06:43.953][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:06:43.955][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:43.956][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.957][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.959][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.960][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.962][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.964][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.965][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:43.966][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:06:43.967][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.969][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.971][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.972][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:06:43.973][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.978][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.983][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:06:43.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:43.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:43.988][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:06:43.989][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:06:43.990][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-10-12 16:06:44.016][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:44.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:44.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.022][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:44.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:44.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.026][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:44.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:06:44.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.036][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:06:44.037][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:06:44.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.040][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.041][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.042][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.046][ef$get] fields variable is a list.
biodb.INFO [2024-10-12 16:06:44.050][biodb::testThat]
biodb.INFO [2024-10-12 16:06:44.052][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2024-10-12 16:06:44.054][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:06:44.056][biodb::testThat]
biodb.TRACE[2024-10-12 16:06:44.062][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:06:44.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:06:44.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.069][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:06:44.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:06:44.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.077][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:06:44.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:06:44.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:44.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:44.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:44.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:44.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:44.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:06:44.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:06:44.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:06:44.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:06:44.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:06:44.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:06:44.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:06:44.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:06:44.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:06:44.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:06:44.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:06:44.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:06:44.209][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.391025&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:06:44.213][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:06:44.214][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:06:44.216][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.391025&ExactMassOffSet=0.11".
biodb.TRACE[2024-10-12 16:06:44.952][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.391025&ExactMassOffSet=0.11 does not exist.
biodb.TRACE[2024-10-12 16:06:44.953][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:06:44.955][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.391025&ExactMassOffSet=0.11" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:06:44.957][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.391025&ExactMassOffSet=0.11).
biodb.DEBUG[2024-10-12 16:06:50.626][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:06:50.629][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/856708e2bbeea806179c75604ab7003a.content"
biodb.TRACE[2024-10-12 16:06:50.716][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/856708e2bbeea806179c75604ab7003a.request"
biodb.DEBUG[2024-10-12 16:07:07.099][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:07:07.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:07.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:07.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:07.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:07.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:07.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:07.113][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[2024-10-12 16:07:07.114][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.119][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.124][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:07.125][private$selectFields]
biodb.TRACE[2024-10-12 16:07:07.126][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:07.127][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:07.128][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:07.129][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.131][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.133][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.134][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.135][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.137][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.138][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:07.140][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:07.141][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.142][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.144][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.145][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:07.146][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.151][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.156][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.161][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:07:07.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:07.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:07.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:07.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:07.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:07.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:07.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:07.176][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.180][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.185][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:07.186][private$selectFields]
biodb.TRACE[2024-10-12 16:07:07.187][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:07.188][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:07.189][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:07.190][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.192][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.194][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.195][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.196][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.197][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.198][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.200][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:07.201][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:07.202][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.203][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.205][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.206][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:07.208][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.212][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.217][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.222][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:07:07.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:07.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:07.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:07.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:07.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:07.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:07.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:07.237][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.242][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.247][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:07.248][private$selectFields]
biodb.TRACE[2024-10-12 16:07:07.249][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:07.250][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:07.251][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:07.252][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.254][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.256][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.257][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.258][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.261][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.262][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:07.263][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:07.265][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.267][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.270][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.271][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:07.272][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.277][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.282][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:07.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:07.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:07.287][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:07:07.288][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:07:07.289][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:07:07.291][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:07.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:07.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:07.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:07.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:07.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:07.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:07:07.308][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.073274&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:07:07.312][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:07:07.313][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:07:07.315][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.073274&ExactMassOffSet=0.11".
biodb.TRACE[2024-10-12 16:07:08.052][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.073274&ExactMassOffSet=0.11 does not exist.
biodb.TRACE[2024-10-12 16:07:08.054][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:07:08.056][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.073274&ExactMassOffSet=0.11" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:07:08.058][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.073274&ExactMassOffSet=0.11).
biodb.DEBUG[2024-10-12 16:07:13.597][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:07:13.600][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/213dc74fea82b4e00a3de9c6296d60ac.content"
biodb.TRACE[2024-10-12 16:07:13.687][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/213dc74fea82b4e00a3de9c6296d60ac.request"
biodb.DEBUG[2024-10-12 16:07:15.088][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:07:15.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:15.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:15.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:15.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:15.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:15.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:15.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:15.104][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.108][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.113][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:15.114][private$selectFields]
biodb.TRACE[2024-10-12 16:07:15.115][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:15.116][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:15.117][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:15.118][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.120][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.122][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.123][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.124][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.126][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.127][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:15.129][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:15.130][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.131][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.133][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.134][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:15.135][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.140][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.145][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.149][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:07:15.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:15.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:15.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:15.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:15.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:15.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:15.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:15.164][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.169][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.173][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:15.174][private$selectFields]
biodb.TRACE[2024-10-12 16:07:15.175][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:15.176][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:15.177][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:15.179][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.180][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.182][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.183][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.184][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.186][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.188][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:15.189][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:15.190][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.191][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.193][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.194][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:15.196][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.200][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.205][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.210][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:07:15.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:15.212][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:15.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:15.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:15.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:15.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:15.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:15.224][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.229][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.234][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:15.235][private$selectFields]
biodb.TRACE[2024-10-12 16:07:15.236][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:15.237][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:15.238][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:15.239][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.241][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.243][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.244][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.245][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.247][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.249][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:15.250][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:15.251][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.252][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.254][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.256][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:15.257][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.262][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.266][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:15.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:15.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:15.273][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:07:15.275][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:07:15.276][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:07:15.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:15.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:15.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:15.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:15.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:15.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:15.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:07:15.294][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.182429&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:07:15.297][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:07:15.298][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:07:15.301][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.182429&ExactMassOffSet=0.11".
biodb.TRACE[2024-10-12 16:07:16.043][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.182429&ExactMassOffSet=0.11 does not exist.
biodb.TRACE[2024-10-12 16:07:16.045][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:07:16.047][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.182429&ExactMassOffSet=0.11" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:07:16.048][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.182429&ExactMassOffSet=0.11).
biodb.DEBUG[2024-10-12 16:07:21.808][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:07:21.811][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/599a9d63e9d10326d614f066b3a2769e.content"
biodb.TRACE[2024-10-12 16:07:21.917][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/599a9d63e9d10326d614f066b3a2769e.request"
biodb.DEBUG[2024-10-12 16:07:25.621][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:07:25.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:25.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:25.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:25.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:25.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:25.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:25.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:25.636][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.641][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.645][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:25.647][private$selectFields]
biodb.TRACE[2024-10-12 16:07:25.648][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:25.649][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:25.650][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:25.651][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.652][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.654][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.655][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.657][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.659][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.660][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:25.661][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:25.662][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.664][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.666][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.667][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:25.668][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.673][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.677][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.682][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:07:25.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:25.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:25.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:25.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:25.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:25.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:25.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:25.697][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.701][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.706][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:25.707][private$selectFields]
biodb.TRACE[2024-10-12 16:07:25.708][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:25.709][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:25.710][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:25.711][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.713][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.715][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.716][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.717][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.719][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.720][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:25.721][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:25.723][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.724][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.726][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.727][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:25.728][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.733][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.737][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.742][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:07:25.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:25.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:25.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:25.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:25.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:25.755][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:25.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:25.757][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.762][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.767][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:25.768][private$selectFields]
biodb.TRACE[2024-10-12 16:07:25.769][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:25.770][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:25.771][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:25.772][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.773][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.776][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.777][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.778][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.780][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.781][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:25.783][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:25.784][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.785][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.787][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.788][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:25.789][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.794][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.799][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:25.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:25.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:25.804][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:07:25.805][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:07:25.806][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:07:25.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:25.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:25.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:25.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:25.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:25.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:25.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:07:25.848][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:07:25.851][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:07:25.853][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2024-10-12 16:07:25.855][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:07:25.995][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2024-10-12 16:07:27.518][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:07:27.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:27.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:27.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:27.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:27.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:27.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:27.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:27.533][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.538][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.542][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:27.543][private$selectFields]
biodb.TRACE[2024-10-12 16:07:27.544][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:27.546][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:27.547][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:27.548][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.549][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.551][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.552][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.554][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.556][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.557][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:27.558][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:27.559][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.560][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.562][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.564][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:27.565][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.569][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.574][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.579][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:07:27.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:27.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:27.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:27.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:27.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:27.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:27.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:27.593][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.598][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.603][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:27.604][private$selectFields]
biodb.TRACE[2024-10-12 16:07:27.605][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:27.606][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:27.607][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:27.608][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.609][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.612][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.613][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.614][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.616][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.617][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:27.618][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:27.620][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.621][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.623][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.624][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:27.625][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.630][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.634][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.639][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:07:27.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:27.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:27.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:27.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:27.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:27.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:27.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:27.654][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.659][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.663][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:27.664][private$selectFields]
biodb.TRACE[2024-10-12 16:07:27.665][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:27.667][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:27.668][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:27.669][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.670][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.673][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.674][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.675][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.678][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.679][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:27.680][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:27.681][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.683][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.685][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.686][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:27.687][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.692][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.697][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:27.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:27.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:27.702][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:07:27.703][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:07:27.704][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:07:27.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:27.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:27.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:27.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:27.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:27.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:27.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:07:27.722][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:07:27.726][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:07:27.728][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2024-10-12 16:07:27.729][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:07:27.850][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2024-10-12 16:07:29.182][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:07:29.184][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:29.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:29.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:29.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:29.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:29.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:29.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:29.198][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.203][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.207][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:29.208][private$selectFields]
biodb.TRACE[2024-10-12 16:07:29.209][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:29.211][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:29.212][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:29.213][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.214][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.216][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.217][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.219][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.221][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.222][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:29.223][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:29.224][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.226][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.228][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.229][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:29.230][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.235][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.240][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.245][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:07:29.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:29.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:29.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:29.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:29.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:29.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:29.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:29.259][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.266][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.271][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:29.272][private$selectFields]
biodb.TRACE[2024-10-12 16:07:29.273][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:29.274][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:29.275][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:29.277][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.278][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.280][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.281][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.282][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.285][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.286][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:29.287][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:29.288][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.289][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.292][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.293][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:29.294][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.299][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.303][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.308][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:07:29.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:29.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:29.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:29.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:29.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:29.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:29.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:29.323][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.328][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.332][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:29.333][private$selectFields]
biodb.TRACE[2024-10-12 16:07:29.335][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:29.336][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:29.337][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:29.338][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.339][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.341][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.343][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.344][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.346][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.347][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:29.348][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:29.350][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.351][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.352][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.353][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.354][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:29.356][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.360][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.365][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:29.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:29.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:29.370][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:07:29.371][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:07:29.372][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:07:29.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:29.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:29.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:29.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:29.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:29.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:29.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:07:29.390][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:07:29.394][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:07:29.395][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2024-10-12 16:07:29.397][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:07:29.534][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2024-10-12 16:07:30.852][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:07:30.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:30.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:30.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:30.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:30.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:30.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:30.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:30.867][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.872][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.877][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:30.878][private$selectFields]
biodb.TRACE[2024-10-12 16:07:30.879][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:30.880][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:30.881][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:30.882][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.883][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.885][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.887][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.888][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.890][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.891][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:30.892][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:30.893][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.895][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.897][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.898][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:30.899][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.904][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.908][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.913][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:07:30.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:30.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:30.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:30.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:30.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:30.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:30.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:30.928][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.932][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.937][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:30.938][private$selectFields]
biodb.TRACE[2024-10-12 16:07:30.939][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:30.940][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:30.941][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:30.943][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.944][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.946][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.947][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.948][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.950][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.952][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:30.953][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:30.954][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.955][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.957][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.958][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:30.959][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.964][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.969][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.973][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:07:30.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:30.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:30.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:30.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:30.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:30.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:30.987][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.TRACE[2024-10-12 16:07:30.988][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.993][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:30.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:30.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:30.997][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:30.998][private$selectFields]
biodb.TRACE[2024-10-12 16:07:30.999][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:31.001][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:31.002][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:31.003][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:31.004][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:31.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:31.006][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:31.007][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:31.009][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:31.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:31.011][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:31.012][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:31.013][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:31.014][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:31.016][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:31.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:31.018][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:31.019][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:31.020][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:31.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:31.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:31.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:31.025][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:31.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:31.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:31.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:31.029][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:31.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:31.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:31.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:31.034][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:07:31.036][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:07:31.037][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:07:31.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:31.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:31.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:31.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:31.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:31.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:31.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:07:31.079][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.591025&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:07:31.083][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:07:31.084][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:07:31.087][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.591025&ExactMassOffSet=0.11".
biodb.TRACE[2024-10-12 16:07:32.834][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.591025&ExactMassOffSet=0.11 does not exist.
biodb.TRACE[2024-10-12 16:07:32.835][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:07:32.837][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.591025&ExactMassOffSet=0.11" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:07:32.839][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.591025&ExactMassOffSet=0.11).
biodb.DEBUG[2024-10-12 16:07:39.256][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:07:39.259][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/ec7b47285bd6f593d724b6f7745f0646.content"
biodb.TRACE[2024-10-12 16:07:39.405][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/ec7b47285bd6f593d724b6f7745f0646.request"
biodb.DEBUG[2024-10-12 16:07:40.744][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:07:40.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:40.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:40.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:40.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:40.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:40.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:40.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:40.759][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.764][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.769][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:40.770][private$selectFields]
biodb.TRACE[2024-10-12 16:07:40.771][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:40.772][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:40.773][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:40.774][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.775][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.777][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.779][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.780][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.782][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.783][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:40.784][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:40.785][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.787][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.789][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.790][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:40.791][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.796][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.800][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.805][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:07:40.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:40.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:40.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:40.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:40.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:40.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:40.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:40.820][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.825][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.829][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:40.830][private$selectFields]
biodb.TRACE[2024-10-12 16:07:40.831][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:40.833][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:40.834][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:40.835][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.836][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.838][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.839][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.841][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.843][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.844][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:40.845][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:40.846][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.847][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.849][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.851][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:40.852][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.856][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.861][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.866][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:07:40.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:40.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:40.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:40.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:40.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:40.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:40.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:40.881][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.885][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.890][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:40.891][private$selectFields]
biodb.TRACE[2024-10-12 16:07:40.892][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:40.893][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:40.894][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:40.895][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.897][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.899][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.900][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.901][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.904][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.905][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:40.906][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:40.907][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.908][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.911][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.912][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:40.913][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.918][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.923][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:40.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:40.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:40.928][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:07:40.929][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:07:40.930][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:07:40.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:40.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:40.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:40.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:40.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:40.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:40.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:07:40.948][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.273274&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:07:40.952][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:07:40.953][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:07:40.955][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.273274&ExactMassOffSet=0.11".
biodb.TRACE[2024-10-12 16:07:41.694][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.273274&ExactMassOffSet=0.11 does not exist.
biodb.TRACE[2024-10-12 16:07:41.695][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:07:41.697][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.273274&ExactMassOffSet=0.11" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:07:41.699][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.273274&ExactMassOffSet=0.11).
biodb.DEBUG[2024-10-12 16:07:47.438][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:07:47.441][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/236b5f2d20f6da60d3d5e29141c3c6fd.content"
biodb.TRACE[2024-10-12 16:07:47.560][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/236b5f2d20f6da60d3d5e29141c3c6fd.request"
biodb.DEBUG[2024-10-12 16:07:48.897][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:07:48.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:48.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:48.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:48.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:48.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:48.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:48.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:48.914][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:48.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:48.918][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:48.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:48.923][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:48.924][private$selectFields]
biodb.TRACE[2024-10-12 16:07:48.925][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:48.926][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:48.928][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:48.929][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.930][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:48.932][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:48.933][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.935][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:48.937][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:48.938][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:48.939][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:48.940][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.942][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:48.944][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:48.945][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:48.946][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:48.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:48.951][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:48.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:48.956][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:48.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:48.961][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:07:48.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:48.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:48.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:48.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:48.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:48.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:48.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:48.975][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:48.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:48.980][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:48.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:48.985][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:48.986][private$selectFields]
biodb.TRACE[2024-10-12 16:07:48.987][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:48.988][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:48.989][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:48.990][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.992][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:48.994][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:48.995][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.996][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:48.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:48.998][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:49.000][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:49.001][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:49.002][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.003][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:49.005][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:49.007][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:49.008][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:49.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:49.013][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:49.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:49.017][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:49.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:49.022][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:07:49.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:49.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:49.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:49.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:49.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:49.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:49.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:49.037][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:49.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:49.042][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:49.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:49.046][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:49.047][private$selectFields]
biodb.TRACE[2024-10-12 16:07:49.048][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:49.050][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:49.051][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:49.052][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.053][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:49.056][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:49.057][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.058][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:49.060][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:49.062][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:49.063][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:49.064][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.065][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:49.067][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:49.069][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:49.070][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:49.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:49.075][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:49.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:49.079][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:49.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:49.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:49.085][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:07:49.086][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:07:49.087][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:07:49.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:49.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:49.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:49.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:49.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:49.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:49.101][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.DEBUG[2024-10-12 16:07:49.105][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.382429&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:07:49.109][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-10-12 16:07:49.110][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-10-12 16:07:49.112][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.382429&ExactMassOffSet=0.11".
biodb.TRACE[2024-10-12 16:07:49.849][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.382429&ExactMassOffSet=0.11 does not exist.
biodb.TRACE[2024-10-12 16:07:49.850][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2024-10-12 16:07:49.852][getUrlRequestResult] URL "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.382429&ExactMassOffSet=0.11" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2024-10-12 16:07:49.855][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.382429&ExactMassOffSet=0.11).
biodb.DEBUG[2024-10-12 16:07:55.625][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-10-12 16:07:55.628][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/c0ec3345a6e512e30aa3c52ef1c02f40.content"
biodb.TRACE[2024-10-12 16:07:55.909][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/c0ec3345a6e512e30aa3c52ef1c02f40.request"
biodb.DEBUG[2024-10-12 16:07:57.228][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:07:57.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:57.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:57.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:57.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:57.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:57.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:57.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:57.243][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.248][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.253][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:57.254][private$selectFields]
biodb.TRACE[2024-10-12 16:07:57.255][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:57.256][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:57.257][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:57.258][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.259][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.261][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.262][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.264][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.266][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.267][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:57.268][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:57.269][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.270][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.273][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.274][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:57.275][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.280][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.285][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.289][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:07:57.291][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:57.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:57.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:57.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:57.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:57.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:57.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:57.304][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.309][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.313][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:57.314][private$selectFields]
biodb.TRACE[2024-10-12 16:07:57.315][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:57.316][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:57.318][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:57.319][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.320][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.322][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.323][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.325][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.326][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.327][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.328][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:57.329][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:57.330][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.332][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.334][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.335][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:57.336][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.341][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.345][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.350][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:07:57.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:57.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:57.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:57.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:57.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:57.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:57.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:57.365][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.369][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.374][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:57.375][private$selectFields]
biodb.TRACE[2024-10-12 16:07:57.376][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:57.377][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:57.378][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:57.379][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.381][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.383][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.384][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.385][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.388][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.389][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:57.390][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:57.391][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.392][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.394][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.396][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:57.397][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.401][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.406][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:57.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:57.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:57.412][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:07:57.413][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:07:57.414][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:07:57.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:57.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:57.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:57.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:57.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:57.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:57.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:07:57.456][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.391025&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:07:57.460][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:07:57.461][cch$loadFileContent] Trying to load 1 files from cache: [1]: "856708e2bbeea806179c75604ab7003a".
biodb.TRACE[2024-10-12 16:07:57.463][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:07:57.614][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/856708e2bbeea806179c75604ab7003a.content".
biodb.DEBUG[2024-10-12 16:07:58.934][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:07:58.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:58.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:58.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:58.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:58.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:58.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:58.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:58.950][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:58.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:58.955][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:58.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:58.959][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:58.961][private$selectFields]
biodb.TRACE[2024-10-12 16:07:58.962][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:58.963][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:58.964][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:58.965][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.966][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:58.969][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:58.970][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.971][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:58.973][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:58.974][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:58.975][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:58.977][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.978][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:58.980][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:58.981][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:58.982][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:58.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:58.987][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:58.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:58.992][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:58.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:58.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:58.997][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:07:58.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:58.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:59.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:59.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:59.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:59.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:59.010][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[2024-10-12 16:07:59.011][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.016][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.021][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:59.022][private$selectFields]
biodb.TRACE[2024-10-12 16:07:59.023][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:59.024][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:59.025][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:59.026][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.027][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.030][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.031][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.032][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.034][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.035][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:59.037][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:59.038][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.039][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.041][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.042][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:59.043][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.048][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.053][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.058][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:07:59.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:59.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:59.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:59.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:59.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:59.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:59.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:07:59.073][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.077][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.082][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:59.083][private$selectFields]
biodb.TRACE[2024-10-12 16:07:59.084][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:07:59.085][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:07:59.086][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:59.088][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.089][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.091][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.092][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.093][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.096][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.097][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:59.098][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:07:59.099][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.100][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.103][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.104][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:07:59.105][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.110][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.115][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:07:59.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:07:59.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:07:59.120][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:07:59.121][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:07:59.122][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:07:59.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:07:59.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:07:59.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:07:59.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:07:59.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:07:59.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:07:59.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:07:59.139][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.073274&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:07:59.143][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:07:59.144][cch$loadFileContent] Trying to load 1 files from cache: [1]: "213dc74fea82b4e00a3de9c6296d60ac".
biodb.TRACE[2024-10-12 16:07:59.146][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:07:59.286][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/213dc74fea82b4e00a3de9c6296d60ac.content".
biodb.DEBUG[2024-10-12 16:08:00.624][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:08:00.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:00.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:00.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:00.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:00.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:00.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:00.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:00.640][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.645][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.649][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:00.650][private$selectFields]
biodb.TRACE[2024-10-12 16:08:00.651][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:00.652][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:00.654][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:00.655][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.656][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.658][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.659][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.661][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.663][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.664][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:00.665][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:00.666][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.667][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.670][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.671][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:00.672][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.677][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.681][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.686][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:08:00.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:00.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:00.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:00.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:00.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:00.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:00.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:00.701][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.706][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.710][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:00.711][private$selectFields]
biodb.TRACE[2024-10-12 16:08:00.713][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:00.714][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:00.715][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:00.716][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.717][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.719][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.721][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.722][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.724][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.725][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:00.726][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:00.728][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.729][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.731][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.732][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:00.733][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.738][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.743][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.748][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:08:00.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:00.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:00.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:00.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:00.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:00.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:00.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:00.762][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.767][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.772][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:00.773][private$selectFields]
biodb.TRACE[2024-10-12 16:08:00.774][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:00.775][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:00.776][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:00.777][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.779][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.781][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.782][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.783][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.785][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.787][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:00.788][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:00.789][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.790][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.793][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.794][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:00.795][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.800][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.804][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:00.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:00.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:00.810][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:08:00.811][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:08:00.812][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:08:00.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:00.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:00.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:00.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:00.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:00.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:00.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:08:00.830][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.182429&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:08:00.833][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:08:00.835][cch$loadFileContent] Trying to load 1 files from cache: [1]: "599a9d63e9d10326d614f066b3a2769e".
biodb.TRACE[2024-10-12 16:08:00.836][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:08:00.957][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/599a9d63e9d10326d614f066b3a2769e.content".
biodb.DEBUG[2024-10-12 16:08:02.301][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:08:02.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:02.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:02.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:02.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:02.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:02.315][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:02.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:02.317][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.322][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.326][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:02.327][private$selectFields]
biodb.TRACE[2024-10-12 16:08:02.329][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:02.330][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:02.331][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:02.332][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.333][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.335][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.337][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.338][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.340][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.341][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:02.342][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:02.343][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.345][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.347][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.348][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:02.349][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.354][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.358][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.363][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:08:02.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:02.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:02.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:02.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:02.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:02.375][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:02.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:02.378][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.382][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.387][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:02.388][private$selectFields]
biodb.TRACE[2024-10-12 16:08:02.389][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:02.390][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:02.391][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:02.392][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.394][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.395][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.396][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.397][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.398][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.400][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.401][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:02.403][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:02.404][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.405][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.407][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.408][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:02.409][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.414][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.419][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.423][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:08:02.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:02.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:02.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:02.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:02.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:02.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:02.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:02.438][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.443][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.447][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:02.449][private$selectFields]
biodb.TRACE[2024-10-12 16:08:02.450][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:02.451][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:02.452][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:02.453][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.454][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.456][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.458][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.459][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.461][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.462][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:02.463][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:02.464][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.466][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.468][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.469][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:02.470][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.475][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.480][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:02.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:02.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:02.484][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:08:02.486][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:08:02.487][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:08:02.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:02.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:02.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:02.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:02.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:02.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:02.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:08:02.528][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:08:02.532][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:08:02.533][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2024-10-12 16:08:02.535][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:08:02.655][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2024-10-12 16:08:03.979][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:08:03.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:03.982][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:03.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:03.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:03.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:03.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:03.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:03.994][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:03.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:03.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:03.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:03.999][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.004][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:04.005][private$selectFields]
biodb.TRACE[2024-10-12 16:08:04.006][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:04.007][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:04.008][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:04.009][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.010][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.012][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.014][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.015][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.017][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.018][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:04.019][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:04.020][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.022][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.024][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.025][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:04.026][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.031][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.035][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.040][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:08:04.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:04.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:04.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:04.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:04.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:04.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:04.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:04.055][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.060][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.064][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:04.065][private$selectFields]
biodb.TRACE[2024-10-12 16:08:04.066][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:04.067][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:04.068][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:04.070][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.071][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.073][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.074][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.075][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.078][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.079][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:04.080][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:04.081][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.082][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.084][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.086][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:04.088][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.095][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.101][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.106][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:08:04.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:04.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:04.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:04.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:04.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:04.118][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:04.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:04.121][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.125][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.130][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:04.131][private$selectFields]
biodb.TRACE[2024-10-12 16:08:04.132][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:04.133][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:04.134][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:04.136][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.137][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.138][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.139][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.140][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.142][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.144][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.145][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:04.146][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:04.147][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.149][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.151][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.152][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:04.153][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.158][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.162][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:04.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:04.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:04.167][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:08:04.169][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:08:04.170][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:08:04.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:04.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:04.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:04.181][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:04.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:04.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:04.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:08:04.187][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:08:04.191][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:08:04.192][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2024-10-12 16:08:04.194][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:08:04.317][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2024-10-12 16:08:05.633][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:08:05.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:05.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:05.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:05.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:05.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:05.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:05.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:05.648][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.653][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.657][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:05.658][private$selectFields]
biodb.TRACE[2024-10-12 16:08:05.660][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:05.661][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:05.662][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:05.663][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.664][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.666][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.667][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.669][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.671][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.672][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:05.673][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:05.674][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.675][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.677][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.679][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:05.680][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.684][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.689][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.694][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:08:05.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:05.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:05.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:05.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:05.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:05.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:05.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:05.708][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.713][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.717][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:05.718][private$selectFields]
biodb.TRACE[2024-10-12 16:08:05.719][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:05.721][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:05.722][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:05.723][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.724][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.726][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.727][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.728][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.731][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.732][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:05.733][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:05.734][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.735][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.737][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.739][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:05.740][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.744][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.749][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.754][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:08:05.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:05.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:05.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:05.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:05.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:05.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:05.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:05.768][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.773][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.777][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:05.778][private$selectFields]
biodb.TRACE[2024-10-12 16:08:05.780][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:05.781][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:05.782][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:05.783][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.784][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.786][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.788][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.789][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.791][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.792][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:05.793][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:05.794][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.796][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.798][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.799][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:05.800][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.805][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.810][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:05.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:05.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:05.814][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:08:05.816][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:08:05.817][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:08:05.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:05.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:05.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:05.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:05.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:05.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:05.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:08:05.834][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:08:05.837][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:08:05.839][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2024-10-12 16:08:05.840][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:08:05.961][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2024-10-12 16:08:07.307][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:08:07.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:07.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:07.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:07.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:07.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:07.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:07.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:07.323][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.327][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.332][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:07.333][private$selectFields]
biodb.TRACE[2024-10-12 16:08:07.334][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:07.335][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:07.336][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:07.337][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.338][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.341][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.342][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.343][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.345][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.346][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:07.348][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:07.349][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.350][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.352][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.353][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:07.354][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.359][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.364][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.369][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:08:07.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:07.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:07.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:07.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:07.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:07.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:07.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:07.385][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.389][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.394][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:07.395][private$selectFields]
biodb.TRACE[2024-10-12 16:08:07.396][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:07.397][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:07.398][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:07.399][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.401][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.403][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.404][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.406][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.408][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.409][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:07.410][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:07.411][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.412][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.415][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.416][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:07.417][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.421][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.426][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.431][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:08:07.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:07.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:07.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:07.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:07.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:07.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:07.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:07.446][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.450][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.455][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:07.456][private$selectFields]
biodb.TRACE[2024-10-12 16:08:07.457][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:07.458][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:07.459][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:07.460][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.462][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.464][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.465][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.466][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.468][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.470][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:07.471][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:07.472][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.473][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.475][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.477][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:07.478][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.482][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.487][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:07.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:07.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:07.492][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:08:07.493][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:08:07.494][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:08:07.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:07.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:07.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:07.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:07.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:07.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:07.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:08:07.537][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.591025&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:08:07.541][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:08:07.542][cch$loadFileContent] Trying to load 1 files from cache: [1]: "ec7b47285bd6f593d724b6f7745f0646".
biodb.TRACE[2024-10-12 16:08:07.544][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:08:07.665][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/ec7b47285bd6f593d724b6f7745f0646.content".
biodb.DEBUG[2024-10-12 16:08:08.975][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:08:08.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:08.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:08.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:08.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:08.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:08.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:08.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:08.991][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:08.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:08.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:08.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:08.996][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:08.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:08.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.002][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:09.003][private$selectFields]
biodb.TRACE[2024-10-12 16:08:09.004][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:09.005][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:09.006][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:09.007][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.009][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.011][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.012][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.013][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.016][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.017][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:09.018][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:09.019][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.021][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.023][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.024][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:09.025][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.030][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.035][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.040][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:08:09.042][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:09.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:09.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:09.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:09.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:09.053][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:09.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:09.056][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.061][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.066][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:09.067][private$selectFields]
biodb.TRACE[2024-10-12 16:08:09.068][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:09.069][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:09.070][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:09.072][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.073][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.075][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.076][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.078][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.080][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.081][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:09.082][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:09.084][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.085][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.087][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.089][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:09.090][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.095][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.115][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.120][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:08:09.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:09.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:09.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:09.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:09.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:09.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:09.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:09.135][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.140][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.144][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:09.145][private$selectFields]
biodb.TRACE[2024-10-12 16:08:09.146][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:09.147][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:09.149][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:09.150][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.151][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.153][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.154][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.156][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.158][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.159][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:09.160][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:09.161][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.162][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.165][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.166][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:09.167][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.172][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.177][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:09.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:09.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:09.182][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:08:09.183][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:08:09.184][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:08:09.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:09.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:09.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:09.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:09.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:09.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:09.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:08:09.202][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.273274&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:08:09.205][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:08:09.207][cch$loadFileContent] Trying to load 1 files from cache: [1]: "236b5f2d20f6da60d3d5e29141c3c6fd".
biodb.TRACE[2024-10-12 16:08:09.208][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:08:09.330][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/236b5f2d20f6da60d3d5e29141c3c6fd.content".
biodb.DEBUG[2024-10-12 16:08:10.635][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:08:10.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:10.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:10.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:10.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:10.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:10.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:10.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:10.651][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.655][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.660][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:10.661][private$selectFields]
biodb.TRACE[2024-10-12 16:08:10.662][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:10.663][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:10.664][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:10.665][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.667][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.668][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.669][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.670][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.671][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.673][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.674][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:10.676][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:10.677][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.678][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.680][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.681][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:10.682][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.687][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.692][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.697][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:08:10.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:10.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:10.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:10.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:10.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:10.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:10.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:10.711][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.716][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.721][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:10.722][private$selectFields]
biodb.TRACE[2024-10-12 16:08:10.723][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:10.724][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:10.725][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:10.726][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.727][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.730][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.731][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.732][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.734][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.735][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:10.736][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:10.738][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.739][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.741][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.742][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:10.743][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.748][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.753][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.758][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:08:10.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:10.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:10.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:10.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:10.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:10.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:10.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:10.772][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.777][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.782][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:10.783][private$selectFields]
biodb.TRACE[2024-10-12 16:08:10.784][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:10.785][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:10.786][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:10.787][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.788][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.791][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.792][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.793][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.795][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.796][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:10.798][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:10.799][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.800][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.802][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.803][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:10.804][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.809][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.814][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:10.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:10.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:10.819][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:08:10.820][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:08:10.821][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:08:10.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:10.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:10.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:10.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:10.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:10.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:10.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:08:10.838][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.382429&ExactMassOffSet=0.11".
biodb.DEBUG[2024-10-12 16:08:10.842][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:08:10.843][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c0ec3345a6e512e30aa3c52ef1c02f40".
biodb.TRACE[2024-10-12 16:08:10.845][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:08:10.978][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/c0ec3345a6e512e30aa3c52ef1c02f40.content".
biodb.DEBUG[2024-10-12 16:08:12.283][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:08:12.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:12.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:12.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:12.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:12.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:12.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:12.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:12.299][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.304][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.308][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:12.309][private$selectFields]
biodb.TRACE[2024-10-12 16:08:12.310][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:12.311][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:12.312][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:12.314][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.315][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.317][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.318][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.319][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.322][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.323][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:12.324][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:12.325][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.326][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.328][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.330][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:12.331][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.335][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.340][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.345][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2024-10-12 16:08:12.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:12.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:12.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:12.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:12.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:12.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:12.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:12.359][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.364][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.369][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:12.370][private$selectFields]
biodb.TRACE[2024-10-12 16:08:12.371][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:12.372][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:12.373][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:12.374][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.375][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.377][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.379][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.380][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.382][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.383][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:12.384][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:12.385][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.387][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.389][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.390][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:12.391][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.396][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.400][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.405][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2024-10-12 16:08:12.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:12.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:12.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:12.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:12.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:12.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:12.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:12.420][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.424][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.429][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:12.430][private$selectFields]
biodb.TRACE[2024-10-12 16:08:12.431][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:12.432][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:12.434][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:12.435][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.436][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.438][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.439][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.441][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.443][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.444][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:12.445][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2024-10-12 16:08:12.446][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.448][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.450][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.451][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2024-10-12 16:08:12.452][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.457][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.461][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:12.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.466][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2024-10-12 16:08:12.467][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:08:12.469][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-10-12 16:08:12.493][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:08:12.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:08:12.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.497][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:08:12.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:08:12.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.502][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:08:12.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:08:12.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-10-12 16:08:12.512][biodb::testThat]
biodb.INFO [2024-10-12 16:08:12.513][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2024-10-12 16:08:12.515][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-10-12 16:08:12.516][biodb::testThat]
biodb.TRACE[2024-10-12 16:08:12.519][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:08:12.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:08:12.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.524][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:08:12.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:08:12.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.529][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-10-12 16:08:12.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-10-12 16:08:12.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:08:12.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:08:12.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:08:12.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:08:12.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-10-12 16:08:12.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-10-12 16:08:12.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:12.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:12.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:12.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-10-12 16:08:12.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:12.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:12.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:12.616][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:12.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:12.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:12.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:08:12.623][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:08:12.626][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:08:12.628][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2024-10-12 16:08:12.644][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:08:12.765][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2024-10-12 16:08:14.134][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:08:14.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:14.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:14.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:14.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:14.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:14.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:14.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:14.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.168][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.173][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.177][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.182][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.187][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.191][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.205][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.210][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.214][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.219][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.223][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:14.225][private$selectFields]
biodb.TRACE[2024-10-12 16:08:14.226][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:14.227][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:14.228][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:14.229][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.230][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.232][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.234][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.235][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.237][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.238][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.239][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.241][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.243][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.244][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.246][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.247][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.248][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.250][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.252][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.253][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.255][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.256][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.257][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.260][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.261][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.262][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.265][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.267][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.268][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.271][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.272][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.273][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.275][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.276][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.278][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.280][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.281][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.282][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.284][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.286][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.287][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.289][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.290][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.291][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.294][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.295][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.296][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.298][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.299][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.301][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.303][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.304][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:14.305][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:14.306][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.307][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.310][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.311][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.312][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.314][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.315][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.317][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.319][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.320][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.321][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.323][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.325][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.326][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.328][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.329][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.330][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.331][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.333][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.334][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.335][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.337][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.338][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.339][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.342][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.343][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:14.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.372][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.377][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.382][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.386][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.391][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.396][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.401][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.405][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.410][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.434][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.439][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.443][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.448][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.468][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.477][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2024-10-12 16:08:14.479][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:14.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:14.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:14.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:14.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:14.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:14.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:14.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.511][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.516][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.520][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.525][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.530][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.534][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.548][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.552][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.557][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.562][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.566][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:14.567][private$selectFields]
biodb.TRACE[2024-10-12 16:08:14.568][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:14.570][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:14.571][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:14.572][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.573][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.575][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.576][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.578][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.580][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.581][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.582][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.584][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.585][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.587][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.589][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.590][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.591][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.593][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.594][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.596][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.598][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.599][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.600][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.602][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.604][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.605][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.607][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.608][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.609][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.612][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.613][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.614][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.616][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.617][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.619][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.621][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.622][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.623][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.626][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.627][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.628][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.630][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.631][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.633][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.635][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.636][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.637][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.639][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.640][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.642][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.644][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.645][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:14.646][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:14.647][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.649][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.651][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.652][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.653][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.655][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.656][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.658][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.660][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.661][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.662][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.664][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.666][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.667][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.668][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.669][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.670][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.671][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.674][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.675][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.676][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.678][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.679][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.680][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.683][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.684][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:14.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.714][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.719][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.723][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.728][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.733][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.737][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.742][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.747][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.751][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.771][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.776][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.780][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.785][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.790][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.794][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.802][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000002, 137783, N-(3S-hydroxydecanoyl)-L-serine, C13H25NO5, LMFA00000002, ...].
biodb.DEBUG[2024-10-12 16:08:14.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:14.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:14.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:14.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:14.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:14.815][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:14.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:14.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.849][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.853][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.858][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.863][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.867][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.872][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.886][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.890][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.895][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.899][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.904][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:14.905][private$selectFields]
biodb.TRACE[2024-10-12 16:08:14.906][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:14.907][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:14.908][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:14.909][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.911][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.913][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.915][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.917][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.918][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.920][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.922][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.923][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.924][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.926][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.927][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.929][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.931][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.932][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.933][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.935][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.936][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.938][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.940][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.941][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.942][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.944][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.946][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.947][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.949][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.950][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:14.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.953][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.955][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.956][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.958][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.959][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.960][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.961][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.962][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.964][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.965][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.967][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.968][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.969][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:14.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.972][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.973][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:14.974][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:14.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.976][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.977][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.978][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:14.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.981][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.982][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:14.983][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:14.984][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:14.985][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:14.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.988][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.989][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.990][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:14.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.992][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.993][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:14.995][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:14.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:14.997][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:14.998][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:14.999][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:15.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.001][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.002][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:15.004][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:15.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.006][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.007][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:15.008][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:15.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.010][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.011][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:15.013][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:15.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.015][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.016][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:15.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:15.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:15.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:15.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:15.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:15.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:15.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.031][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:15.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:15.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.036][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:15.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:15.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.041][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:15.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:15.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.045][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:15.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:15.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.050][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:15.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:15.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.055][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:15.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:15.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.059][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:15.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:15.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.064][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:15.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:15.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.069][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:15.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:15.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:15.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:15.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:15.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:15.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:15.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:15.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.087][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:15.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:15.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.092][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:15.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:15.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.097][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:15.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:15.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.102][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:15.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:15.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.106][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:15.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:15.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.111][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:15.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:15.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:15.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:15.118][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2024-10-12 16:08:15.119][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:08:15.121][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:08:15.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:15.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:15.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:15.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:15.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:15.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:15.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:08:15.138][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:08:15.142][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:08:15.143][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2024-10-12 16:08:15.145][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:08:15.266][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2024-10-12 16:08:16.598][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:08:16.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:16.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:16.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:16.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:16.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:16.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:16.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:16.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:16.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:16.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:16.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:16.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.631][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.636][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.640][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:16.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:16.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.645][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:16.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:16.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.650][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.654][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:16.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:16.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.672][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:16.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:16.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.677][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.682][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.686][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:16.687][private$selectFields]
biodb.TRACE[2024-10-12 16:08:16.688][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:16.689][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:16.690][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:16.692][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:16.693][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:16.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.695][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.696][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.697][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.699][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.701][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.702][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.704][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.705][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:16.706][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:16.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.708][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.710][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.711][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.713][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.714][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.715][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.716][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.717][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.719][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:16.720][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:16.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.722][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.723][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.724][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.726][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.728][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:16.729][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:16.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.731][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.732][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.733][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.736][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.737][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.738][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.740][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.741][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:16.742][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:16.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.745][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.746][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.747][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.749][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.750][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.752][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.754][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.755][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:16.756][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:16.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.758][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.759][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.761][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.763][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.764][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:16.765][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:16.766][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:16.767][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:16.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.770][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.771][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.772][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.774][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.775][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.776][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.779][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.780][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:16.781][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:16.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.783][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.784][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.785][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.788][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.789][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.790][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.792][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.793][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:16.794][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:16.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.797][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.798][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.799][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.801][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.802][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:16.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:16.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:16.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:16.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:16.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:16.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:16.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.832][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.836][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.841][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.846][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:16.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:16.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.850][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:16.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:16.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.855][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:16.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:16.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.860][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.864][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.869][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.888][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:16.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:16.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.892][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:16.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:16.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.897][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:16.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:16.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.902][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.907][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.911][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:16.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.919][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2024-10-12 16:08:16.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:16.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:16.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:16.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:16.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:16.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:16.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:16.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:16.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:16.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:16.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:16.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:16.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.953][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.969][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:16.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.974][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:16.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:16.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.978][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:16.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:16.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.983][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.987][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:16.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:16.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:16.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:16.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.001][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.006][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.011][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.015][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.020][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:17.021][private$selectFields]
biodb.TRACE[2024-10-12 16:08:17.022][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:17.023][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:17.024][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:17.025][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:17.027][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:17.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.029][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.030][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.031][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.033][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.034][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.036][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.038][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.039][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:17.040][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:17.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.042][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.043][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.045][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.046][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.047][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.048][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.049][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.051][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.053][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.054][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.056][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.057][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.058][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.060][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.062][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:17.063][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:17.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.065][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.066][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.067][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.069][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.071][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.072][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.074][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.075][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:17.076][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:17.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.078][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.080][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.081][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.083][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.084][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.085][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.087][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.089][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.090][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.092][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.093][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.094][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.097][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.098][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:17.099][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:17.100][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:17.101][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:17.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.104][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.105][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.106][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.108][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.109][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.110][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.113][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.114][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:17.115][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:17.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.117][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.119][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.120][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.122][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.123][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.124][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.127][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.128][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.129][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.131][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.132][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.133][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.136][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.137][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:17.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:17.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:17.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:17.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:17.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:17.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:17.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.166][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.171][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.175][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.180][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:17.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:17.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.185][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:17.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:17.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.189][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:17.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:17.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.194][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.199][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.203][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.227][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.231][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.236][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.241][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.245][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.253][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000002, 137783, N-(3S-hydroxydecanoyl)-L-serine, C13H25NO5, LMFA00000002, ...].
biodb.DEBUG[2024-10-12 16:08:17.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:17.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:17.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:17.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:17.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:17.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:17.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:17.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:17.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:17.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:17.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:17.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.287][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.292][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.296][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:17.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:17.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.301][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:17.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:17.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.306][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.310][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.341][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.345][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.350][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.354][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:17.356][private$selectFields]
biodb.TRACE[2024-10-12 16:08:17.357][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:17.358][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:17.359][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:17.360][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:17.361][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:17.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.363][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.364][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.366][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.368][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.369][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.370][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.372][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.374][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:17.375][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:17.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.377][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.378][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.379][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.381][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.383][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.384][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.385][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.386][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.387][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.388][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.389][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.390][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.392][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.393][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.395][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.396][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:17.397][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:17.398][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.399][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.401][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.402][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:17.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.404][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.405][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.406][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.409][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.410][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:17.411][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:17.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.413][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.414][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.415][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.417][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.419][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.420][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.421][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.422][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.423][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.424][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.426][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.428][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.429][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.430][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.431][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.432][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:17.433][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:17.434][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:17.436][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:17.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.438][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.439][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.440][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.442][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.443][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:17.445][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:17.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.447][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.448][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.449][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.451][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.452][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.454][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.456][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.457][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.458][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.460][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.461][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.463][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.465][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.466][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:17.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:17.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:17.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:17.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:17.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:17.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:17.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.481][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.486][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.491][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:17.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.495][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:17.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:17.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.500][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:17.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:17.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.505][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:17.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:17.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.509][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.514][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.519][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:17.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:17.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.539][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.544][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.549][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:17.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:17.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.553][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.559][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.564][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:17.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:17.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:17.572][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2024-10-12 16:08:17.573][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:08:17.574][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:08:17.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:17.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:17.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:17.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:17.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:17.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:17.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:08:17.592][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:08:17.596][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:08:17.598][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2024-10-12 16:08:17.599][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:08:17.720][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2024-10-12 16:08:19.049][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:08:19.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:19.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:19.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:19.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:19.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:19.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:19.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:19.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.084][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.089][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.093][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.098][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.103][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.108][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.122][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.131][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.136][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.140][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:19.141][private$selectFields]
biodb.TRACE[2024-10-12 16:08:19.143][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:19.144][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:19.145][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:19.146][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.147][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.149][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.151][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.152][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.154][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.155][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.156][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.159][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.160][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.161][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.163][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.164][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.166][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.168][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.169][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.170][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.172][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.173][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.175][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.177][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.178][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.179][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.182][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.183][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.184][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.186][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.187][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.189][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.191][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.192][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.193][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.195][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.197][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.198][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.200][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.201][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.202][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.205][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.206][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.207][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.209][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.211][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.212][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.214][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.215][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.217][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.219][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.220][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:19.221][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:19.222][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.224][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.226][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.227][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.228][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.231][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.232][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.233][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.235][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.237][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.238][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.240][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.241][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.243][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.245][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.246][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.247][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.249][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.251][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.252][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.254][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.255][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.257][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.259][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.260][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:19.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.290][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.295][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.300][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.304][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.309][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.314][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.319][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.323][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.328][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.352][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.356][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.361][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.366][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.371][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.379][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2024-10-12 16:08:19.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:19.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:19.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:19.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:19.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:19.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:19.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:19.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.413][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.431][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.436][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.440][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.445][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.450][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.468][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.473][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.477][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.482][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:19.483][private$selectFields]
biodb.TRACE[2024-10-12 16:08:19.484][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:19.485][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:19.487][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:19.488][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.489][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.491][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.492][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.496][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.497][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.498][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.500][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.501][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.502][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.505][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.506][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.507][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.509][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.510][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.511][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.514][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.515][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.516][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.517][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.518][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.519][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.520][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.523][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.524][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.525][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.527][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.528][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.529][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.531][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.532][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.533][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.534][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.536][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.537][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.538][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.541][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.542][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.543][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.545][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.546][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.548][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.550][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.551][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.552][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.554][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.555][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.557][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.559][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.560][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:19.561][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:19.562][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.564][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.566][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.567][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.568][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.570][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.571][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.573][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.575][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.576][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.577][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.580][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.581][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.582][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.584][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.585][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.587][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.589][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.590][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.591][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.593][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.594][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.596][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.598][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.599][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:19.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.628][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.633][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.638][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.642][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.647][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.652][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.656][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.661][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.666][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.684][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.694][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.698][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.703][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.708][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.716][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000002, 137783, N-(3S-hydroxydecanoyl)-L-serine, C13H25NO5, LMFA00000002, ...].
biodb.DEBUG[2024-10-12 16:08:19.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:19.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:19.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:19.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:19.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:19.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:19.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:19.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.749][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.754][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.758][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.763][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.768][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.772][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.798][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.802][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.807][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.812][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.816][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:19.817][private$selectFields]
biodb.TRACE[2024-10-12 16:08:19.818][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:19.820][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:19.821][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:19.822][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.823][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.825][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.826][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.828][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.830][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.831][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.832][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.834][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.835][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.837][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.839][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.840][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.841][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.843][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.844][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.846][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.848][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.849][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.850][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.852][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.854][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.855][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.857][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.858][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.859][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.861][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.863][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.864][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:19.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.866][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.867][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.868][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.871][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.872][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.873][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.875][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.876][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.877][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.878][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.880][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.881][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.882][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.884][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.885][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.886][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.889][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.890][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.891][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.893][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.894][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:19.896][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:19.897][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.898][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.900][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.901][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.902][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.905][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.906][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.907][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.909][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.910][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.912][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.914][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.915][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.916][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.918][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.920][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:19.921][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:19.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.923][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.924][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.925][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:19.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.928][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.929][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:19.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:19.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:19.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.945][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.950][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.954][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:19.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.959][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.964][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.968][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:19.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:19.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.973][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.978][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.983][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:19.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:19.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:19.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:19.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:20.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:20.002][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:20.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:20.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:20.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:20.007][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:20.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:20.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:20.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:20.011][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:20.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:20.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:20.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:20.016][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:20.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:20.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:20.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:20.021][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:20.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:20.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:20.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:20.026][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:20.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:20.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:20.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:20.034][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2024-10-12 16:08:20.035][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:08:20.036][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:08:20.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:20.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:20.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:20.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:20.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:20.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:20.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:08:20.060][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:08:20.064][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:08:20.066][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2024-10-12 16:08:20.067][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:08:20.188][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2024-10-12 16:08:21.523][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:08:21.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:21.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:21.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:21.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:21.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:21.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:21.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:21.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:21.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:21.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:21.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:21.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.558][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.563][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.568][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:21.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:21.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.572][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:21.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:21.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.577][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.582][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.596][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:21.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:21.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.600][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:21.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:21.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.605][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.610][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.614][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:21.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:21.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.619][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:21.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:21.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.624][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:21.625][private$selectFields]
biodb.TRACE[2024-10-12 16:08:21.626][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:21.627][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:21.628][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:21.629][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:21.631][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:21.632][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.633][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.634][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.635][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.637][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.639][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.640][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.642][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.643][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:21.645][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:21.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.648][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.649][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.651][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.653][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.654][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.656][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.658][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.659][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:21.660][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:21.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.662][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.664][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.665][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.667][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.668][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:21.669][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:21.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.672][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.673][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:21.674][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:21.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.676][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.677][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.679][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.681][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.682][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.683][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.685][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.687][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:21.688][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:21.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.691][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.693][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.694][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.697][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.698][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.699][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.702][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.703][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:21.704][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:21.705][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.707][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.708][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.709][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.712][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.713][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:21.714][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:21.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.716][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.718][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:21.719][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:21.720][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:21.721][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:21.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.724][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.726][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.728][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.729][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.731][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.733][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.734][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:21.735][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:21.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.738][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.739][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.740][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.742][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.743][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.745][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.747][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.748][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:21.749][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:21.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.751][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.753][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.754][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.755][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.756][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.757][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:21.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:21.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:21.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:21.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:21.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:21.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:21.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.787][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.792][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.797][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.802][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:21.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:21.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.806][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:21.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:21.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.811][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:21.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:21.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.816][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.821][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.825][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.845][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:21.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:21.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.849][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:21.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:21.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.854][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:21.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:21.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.859][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.864][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.868][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.876][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2024-10-12 16:08:21.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:21.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:21.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:21.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:21.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:21.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:21.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:21.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:21.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:21.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:21.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:21.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:21.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.924][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.929][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:21.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.934][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:21.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:21.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.938][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:21.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:21.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.943][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.948][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:21.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:21.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.962][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:21.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:21.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.966][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:21.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:21.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.971][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.975][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:21.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.980][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:21.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:21.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.985][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:21.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:21.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:21.989][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:21.990][private$selectFields]
biodb.TRACE[2024-10-12 16:08:21.992][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:21.993][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:21.994][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:21.995][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:21.996][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:21.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:21.998][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.000][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.001][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.003][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.004][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.005][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.008][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.009][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:22.010][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:22.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.012][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.013][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.014][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.017][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.018][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.019][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.020][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.021][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.022][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:22.024][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:22.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.026][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.027][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.028][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.030][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.031][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:22.033][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:22.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.035][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.036][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:22.037][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:22.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.040][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.041][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.042][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.044][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.045][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.047][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.049][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.050][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:22.051][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:22.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.053][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.055][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.056][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.058][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.059][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.061][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.063][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.064][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:22.065][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:22.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.067][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.069][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.070][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.072][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.073][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:22.074][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:22.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.077][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.078][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:22.079][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:22.080][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:22.081][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:22.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.084][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.085][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.086][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.088][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.089][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.091][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.093][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.094][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:22.095][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:22.096][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.098][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.099][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.100][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.101][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.102][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.103][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.104][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.107][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.108][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:22.109][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:22.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.111][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.113][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.114][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.116][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.117][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:22.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:22.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:22.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:22.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:22.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:22.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:22.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.147][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.152][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.157][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.161][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:22.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:22.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.166][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:22.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:22.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.171][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:22.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:22.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.176][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.180][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.185][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:22.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:22.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.209][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:22.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:22.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.214][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:22.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:22.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.218][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.223][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.228][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.236][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000002, 137783, N-(3S-hydroxydecanoyl)-L-serine, C13H25NO5, LMFA00000002, ...].
biodb.DEBUG[2024-10-12 16:08:22.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:22.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:22.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:22.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:22.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:22.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:22.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:22.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:22.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:22.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:22.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:22.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.284][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.289][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.293][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:22.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:22.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.298][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:22.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:22.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.303][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.307][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.321][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:22.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:22.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.326][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:22.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:22.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.331][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.335][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.340][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:22.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:22.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.345][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:22.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:22.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.349][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:22.350][private$selectFields]
biodb.TRACE[2024-10-12 16:08:22.351][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:22.353][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:22.354][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:22.355][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:22.356][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:22.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.358][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.359][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.361][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.363][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.364][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.365][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.366][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.367][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.369][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:22.370][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:22.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.372][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.373][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.374][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.377][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.378][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.379][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.381][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.382][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:22.384][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:22.385][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.386][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.387][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.388][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.389][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.390][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.392][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:22.393][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:22.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.395][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.396][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:22.397][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:22.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.400][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.401][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.402][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:22.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.404][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.405][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.407][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.409][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.410][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:22.411][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:22.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.414][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.415][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.416][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.418][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.419][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.421][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.423][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.424][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:22.425][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:22.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.428][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.429][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.430][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.432][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.433][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:22.435][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:22.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.437][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.438][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:22.439][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:22.440][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:22.442][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:22.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.444][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.445][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.446][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.449][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.450][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:22.451][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:22.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.453][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.454][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.455][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.458][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.459][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.460][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.462][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.463][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:22.465][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:22.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.467][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.468][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.469][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.472][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.473][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:22.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:22.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:22.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:22.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:22.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:22.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:22.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.489][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.493][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.498][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:22.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.503][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:22.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:22.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.508][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:22.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:22.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.512][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:22.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:22.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.517][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.522][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.527][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:22.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:22.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.546][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:22.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:22.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.551][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:22.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:22.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.556][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:22.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:22.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.561][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.565][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.570][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:22.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:22.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:22.578][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2024-10-12 16:08:22.579][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:08:22.580][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:08:22.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:22.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:22.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:22.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:22.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:22.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:22.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:08:22.599][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=275.173274&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:08:22.602][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:08:22.604][cch$loadFileContent] Trying to load 1 files from cache: [1]: "367c47c562148006b92b77e8d975d711".
biodb.TRACE[2024-10-12 16:08:22.606][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:08:22.727][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/367c47c562148006b92b77e8d975d711.content".
biodb.DEBUG[2024-10-12 16:08:24.074][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:08:24.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:24.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:24.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:24.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:24.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:24.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:24.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:24.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.110][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.115][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.119][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.124][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.129][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.133][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.147][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.152][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.157][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.162][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.166][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.171][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.175][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:24.177][private$selectFields]
biodb.TRACE[2024-10-12 16:08:24.178][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:24.179][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:24.180][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:24.181][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.182][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.185][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.186][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.187][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.189][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.190][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.192][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.194][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.195][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.196][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.197][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.198][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.200][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.201][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.203][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.204][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.205][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.208][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.209][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.210][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.212][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.213][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.215][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.217][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.218][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.219][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.222][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.223][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.224][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.226][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.227][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.229][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.231][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.232][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.233][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.235][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.237][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.238][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.240][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.241][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.243][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.245][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.246][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.247][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.249][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.250][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.252][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.254][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.255][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.256][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.259][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.260][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.261][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.263][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.264][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:24.266][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:24.267][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.268][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.271][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.275][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.279][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.281][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.283][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.286][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.287][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.288][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.290][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.291][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.293][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.295][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.296][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.297][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.300][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.301][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.302][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.303][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.304][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.306][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.307][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.309][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.311][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:24.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.341][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.346][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.351][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.356][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.361][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.366][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.371][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.376][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.381][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.400][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.405][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.410][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.415][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.419][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.424][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.432][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2024-10-12 16:08:24.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:24.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:24.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:24.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:24.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:24.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:24.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:24.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.480][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.485][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.489][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.494][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.499][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.503][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.517][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.522][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.526][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.531][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.536][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.540][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.545][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:24.546][private$selectFields]
biodb.TRACE[2024-10-12 16:08:24.547][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:24.548][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:24.549][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:24.550][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.552][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.554][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.555][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.556][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.558][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.560][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.561][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.563][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.564][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.565][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.568][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.569][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.570][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.572][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.573][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.575][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.576][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.577][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.578][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.579][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.581][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.583][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.584][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.586][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.587][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.588][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.591][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.592][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.593][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.595][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.596][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.598][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.600][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.601][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.602][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.604][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.606][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.607][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.608][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.609][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.610][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.611][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.613][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.614][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.615][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.616][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.618][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.620][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.621][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.623][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.624][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.625][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.628][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.629][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.630][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.632][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.633][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:24.635][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:24.636][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.637][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.639][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.640][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.641][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.644][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.645][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.646][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.648][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.649][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.651][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.653][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.654][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.655][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.657][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.659][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.660][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.662][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.663][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.664][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.667][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.668][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.669][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.671][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.672][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:24.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.702][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.707][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.711][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.716][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.721][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.726][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.731][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.735][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.740][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.759][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.764][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.768][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.773][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.778][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.782][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.790][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000002, 137783, N-(3S-hydroxydecanoyl)-L-serine, C13H25NO5, LMFA00000002, ...].
biodb.DEBUG[2024-10-12 16:08:24.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:24.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:24.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:24.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:24.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:24.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:24.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:24.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.836][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.841][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.845][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.850][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.855][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.859][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.873][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.878][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.882][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.887][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.892][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.896][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.901][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:24.902][private$selectFields]
biodb.TRACE[2024-10-12 16:08:24.903][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:24.904][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:24.906][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:24.907][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.908][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.910][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.911][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.913][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.915][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.916][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.917][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.919][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.920][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.922][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.924][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.925][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.926][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.928][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.930][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.931][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.932][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.933][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.934][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.935][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.938][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.939][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.940][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.942][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.943][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.944][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.947][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.948][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.949][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.951][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.952][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.954][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:24.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.956][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.957][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.959][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.961][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.962][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:24.964][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:24.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.966][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.967][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.969][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:24.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.971][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.972][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.973][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:24.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.975][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.977][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:24.978][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:24.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.980][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.981][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.982][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:24.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.985][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.986][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.987][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:24.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.989][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.991][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:24.992][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:24.993][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:24.994][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:24.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:24.997][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:24.998][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:24.999][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:25.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.002][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.003][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:25.004][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:25.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.006][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.007][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:25.009][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:25.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.011][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.012][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:25.013][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:25.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.015][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.017][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:25.018][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:25.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.020][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.021][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:25.022][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:25.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.025][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.026][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:25.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:25.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:25.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:25.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:25.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:25.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:25.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.041][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:25.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:25.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.046][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:25.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:25.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.051][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:25.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:25.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.056][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:25.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:25.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.061][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:25.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:25.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.066][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:25.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:25.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.071][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:25.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:25.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.076][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:25.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:25.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.080][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:25.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:25.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:25.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:25.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:25.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:25.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:25.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:25.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.100][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:25.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:25.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.105][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:25.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:25.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.110][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:25.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:25.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.115][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:25.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:25.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.119][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:25.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:25.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.124][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:25.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:25.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:25.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:25.132][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2024-10-12 16:08:25.133][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:08:25.134][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-10-12 16:08:25.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:25.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:25.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:25.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:25.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:25.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:25.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-10-12 16:08:25.152][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=299.282429&ExactMassOffSet=0.01".
biodb.DEBUG[2024-10-12 16:08:25.156][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-10-12 16:08:25.157][cch$loadFileContent] Trying to load 1 files from cache: [1]: "276078a0b416eb2563e0b778607838d4".
biodb.TRACE[2024-10-12 16:08:25.159][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-10-12 16:08:25.280][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/276078a0b416eb2563e0b778607838d4.content".
biodb.DEBUG[2024-10-12 16:08:26.620][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-10-12 16:08:26.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:26.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:26.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:26.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:26.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:26.633][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:26.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:26.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:26.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:26.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:26.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:26.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.655][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.659][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.664][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:26.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:26.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.669][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:26.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:26.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.674][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.678][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.692][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:26.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:26.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.697][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:26.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:26.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.702][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.706][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.711][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:26.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:26.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.716][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:26.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:26.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.720][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:26.721][private$selectFields]
biodb.TRACE[2024-10-12 16:08:26.723][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:26.724][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:26.725][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:26.726][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:26.727][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:26.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.730][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.731][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.732][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.734][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.735][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.736][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.738][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.739][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.740][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:26.741][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:26.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.743][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.744][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.746][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.748][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.749][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.750][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.752][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.754][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:26.755][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:26.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.757][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.758][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.759][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.762][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.763][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:26.764][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:26.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.766][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.767][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:26.769][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:26.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.771][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.772][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.774][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.775][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.776][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.777][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.778][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.780][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.782][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:26.783][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:26.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.785][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.786][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.787][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.790][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.791][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.792][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.794][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.795][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:26.797][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:26.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.799][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.800][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.801][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.804][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.805][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:26.806][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:26.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.808][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.809][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:26.811][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:26.812][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:26.813][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:26.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.815][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.817][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.818][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.820][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.821][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.822][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.825][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.826][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:26.827][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:26.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.830][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.831][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.832][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.834][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.835][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.837][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.839][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.840][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:26.841][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:26.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.843][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.845][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.846][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.848][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.849][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:26.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:26.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:26.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:26.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:26.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:26.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:26.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:26.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.880][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.884][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.889][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:26.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.894][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:26.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:26.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.898][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:26.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:26.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.903][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:26.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:26.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.908][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.913][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.917][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:26.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:26.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.936][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:26.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:26.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:26.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:26.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.946][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:26.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:26.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.951][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.955][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.960][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:26.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:26.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:26.969][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000001, 178363, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, C40H66O5, LMFA00000001, ...].
biodb.DEBUG[2024-10-12 16:08:26.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:26.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:26.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:26.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:26.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:26.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:26.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:26.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:26.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:26.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.015][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.019][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.024][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.029][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.033][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.038][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.052][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.057][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.061][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.066][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.071][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.075][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.080][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:27.081][private$selectFields]
biodb.TRACE[2024-10-12 16:08:27.082][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:27.083][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:27.084][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:27.085][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.087][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.089][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.090][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.091][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.093][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.094][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.096][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.098][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.099][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.100][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.101][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.102][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.103][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.105][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.107][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.108][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.109][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.111][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.112][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.114][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.116][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.117][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.118][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.120][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.122][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.123][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.124][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.125][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.126][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.127][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.129][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.131][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.132][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.134][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.135][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.136][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.139][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.140][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.141][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.143][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.144][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.146][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.148][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.149][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.150][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.152][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.154][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.155][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.157][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.158][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.159][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.162][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.163][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.164][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.166][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.167][private$selectFields] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:27.169][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:27.170][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.171][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.173][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.174][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.175][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.178][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.179][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.180][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.182][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.183][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.185][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.186][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.187][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.188][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.189][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.191][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.192][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.194][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.196][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.197][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.198][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.200][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.202][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.203][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.205][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.206][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:27.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.236][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.240][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.245][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.250][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.255][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.259][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.264][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.269][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.275][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.294][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.299][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.303][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.308][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.313][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.318][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.326][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, ...] [LMFA00000002, 137783, N-(3S-hydroxydecanoyl)-L-serine, C13H25NO5, LMFA00000002, ...].
biodb.DEBUG[2024-10-12 16:08:27.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-10-12 16:08:27.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:27.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:27.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:27.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:27.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:27.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-10-12 16:08:27.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.371][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.376][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.380][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.385][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.390][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.394][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.408][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.413][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.417][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.422][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.427][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.431][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.436][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:27.437][private$selectFields]
biodb.TRACE[2024-10-12 16:08:27.438][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-10-12 16:08:27.439][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-10-12 16:08:27.440][private$selectFields] Fields [9]: "accession, chebi.id, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id, peak.attr"
biodb.TRACE[2024-10-12 16:08:27.441][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.443][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.445][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.446][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.447][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.449][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.450][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.452][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.454][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.455][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.456][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.458][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.459][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.461][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.463][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.464][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.465][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.467][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.469][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.470][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.472][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.473][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.474][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.476][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.478][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.479][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.481][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.482][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.483][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.485][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.486][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.488][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-10-12 16:08:27.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.490][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.491][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.492][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.495][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.496][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.497][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.499][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.500][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.501][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.504][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.505][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.506][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.508][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.509][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.511][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.513][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.514][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.515][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.517][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.519][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.520][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-10-12 16:08:27.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.522][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.523][private$selectFields] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:27.524][private$organizeFieldsByGroups] Fields [7]: "accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, name, ncbi.pubchem.comp.id"
biodb.TRACE[2024-10-12 16:08:27.525][ef$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.527][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.528][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.529][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.530][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.531][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.533][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.535][ef$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.536][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.538][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.539][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.540][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.541][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.542][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.544][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.545][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.547][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.548][ef$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.549][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.552][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.553][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.554][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.556][ef$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.557][private$organizeFieldsByGroups] Groups [2]: "c("accession", "comp.iupac.name.syst", "formula", "lipidmaps.structure.id", "monoisotopic.mass", "name", "ncbi.pubchem.comp.id"), list()"
biodb.TRACE[2024-10-12 16:08:27.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-10-12 16:08:27.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-10-12 16:08:27.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.573][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.577][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.582][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-10-12 16:08:27.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.587][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.591][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.596][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-10-12 16:08:27.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-10-12 16:08:27.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.601][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.606][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.610][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2024-10-12 16:08:27.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-10-12 16:08:27.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.635][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-10-12 16:08:27.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-10-12 16:08:27.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.644][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.649][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.654][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-10-12 16:08:27.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.661][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, comp.iupac.name.syst, formula, lipidmaps.structure.id, monoisotopic.mass, ...] [LMFA00000003, N-(3-(hexadecanoyloxy)-heptadecanoyl)-L-ornithine, C38H74N2O5, LMFA00000003, 638.559773, ...].
biodb.DEBUG[2024-10-12 16:08:27.662][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-10-12 16:08:27.664][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-10-12 16:08:27.669][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:08:27.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:08:27.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.674][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:08:27.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:08:27.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-10-12 16:08:27.679][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-10-12 16:08:27.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-10-12 16:08:27.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-10-12 16:08:27.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-10-12 16:08:27.688][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-10-12 16:08:27.690][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2024-10-12 16:08:27.691][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2024-10-12 16:08:27.692][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-10-12 16:08:27.693][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-10-12 16:08:27.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-10-12 16:08:27.695][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-10-12 16:08:27.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-10-12 16:08:27.697][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-10-12 16:08:27.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 375 ]
> 
> proc.time()
   user  system elapsed 
  84.09    3.42  198.92

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   E:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbLipidmaps_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbuild/bbs-3.19-bioc-longtests/meat/biodbLipidmaps.Rcheck'
* using R version 4.4.1 (2024-06-14 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using options '--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error'
* checking for file 'biodbLipidmaps/DESCRIPTION' ... OK
* this is package 'biodbLipidmaps' version '1.10.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'biodbLipidmaps' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking whether startup messages can be suppressed ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in 'vignettes' ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in 'longtests' ... OK
* checking tests in 'longtests' ...
  Running 'testthat.R'
 OK
* DONE

Status: OK

Installation output

biodbLipidmaps.Rcheck/00install.out

* installing *source* package 'biodbLipidmaps' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning in fun(libname, pkgname) :
  Package 'biodbLipidmaps' is deprecated and will be removed from
  Bioconductor version 3.20
** testing if installed package can be loaded from final location
Warning in fun(libname, pkgname) :
  Package 'biodbLipidmaps' is deprecated and will be removed from
  Bioconductor version 3.20
** testing if installed package keeps a record of temporary installation path
* DONE (biodbLipidmaps)