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This page was generated on 2024-07-16 11:44 -0400 (Tue, 16 Jul 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4677
palomino6Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4416
lconwaymacOS 12.7.1 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4444
kjohnson3macOS 13.6.5 Venturaarm644.4.1 (2024-06-14) -- "Race for Your Life" 4393
palomino8Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4373
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 197/2243HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.11.0  (landing page)
Pierrick Roger
Snapshot Date: 2024-07-15 14:00 -0400 (Mon, 15 Jul 2024)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: dfe3f6c
git_last_commit_date: 2024-04-30 11:37:31 -0400 (Tue, 30 Apr 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino6Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.6.5 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  

CHECK results for biodbChebi on palomino8

To the developers/maintainers of the biodbChebi package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: biodbChebi
Version: 1.11.0
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings biodbChebi_1.11.0.tar.gz
StartedAt: 2024-07-15 22:17:13 -0400 (Mon, 15 Jul 2024)
EndedAt: 2024-07-15 22:21:47 -0400 (Mon, 15 Jul 2024)
EllapsedTime: 274.3 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings biodbChebi_1.11.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/biodbChebi.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 option '--no-vignettes'
* checking for file 'biodbChebi/DESCRIPTION' ... OK
* this is package 'biodbChebi' version '1.11.0'
* 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 'biodbChebi' 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 dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
          user system elapsed
ChebiConn 5.43   2.98   79.37
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.20-bioc/R/library'
* installing *source* package 'biodbChebi' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.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.

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2024-07-15 22:20:19.647][biodb::testContext]
biodb.INFO [2024-07-15 22:20:19.687][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:20:19.690][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-07-15 22:20:19.692][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:20:19.694][biodb::testContext]
biodb.INFO [2024-07-15 22:20:19.733][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:20:19.736][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-15 22:20:19.768][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:20:19.771][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-15 22:20:19.773][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-15 22:20:19.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.779][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-15 22:20:19.829][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-15 22:20:19.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.835][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[2024-07-15 22:20:19.837][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-15 22:20:19.840][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-15 22:20:19.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.847][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-15 22:20:19.849][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-15 22:20:19.850][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-15 22:20:19.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.855][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-15 22:20:19.856][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-15 22:20:19.858][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-15 22:20:19.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.862][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-15 22:20:19.864][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-15 22:20:19.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.868][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-15 22:20:19.870][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-15 22:20:19.871][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-15 22:20:19.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.876][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-15 22:20:19.877][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-15 22:20:19.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.882][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-15 22:20:19.883][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-15 22:20:19.884][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-15 22:20:19.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.889][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:20:19.890][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-15 22:20:19.891][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-15 22:20:19.893][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-15 22:20:19.894][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-15 22:20:19.895][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-15 22:20:19.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.900][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-15 22:20:19.901][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-15 22:20:19.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.906][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-15 22:20:19.907][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-15 22:20:19.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.911][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.DEBUG[2024-07-15 22:20:19.912][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-15 22:20:19.913][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-15 22:20:19.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.918][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-15 22:20:19.919][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-15 22:20:19.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.924][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-15 22:20:19.925][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-15 22:20:19.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.930][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:20:19.931][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-15 22:20:19.934][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-15 22:20:19.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.939][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-15 22:20:19.940][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-15 22:20:19.941][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-15 22:20:19.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:19.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:19.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:19.948][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-15 22:20:19.975][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:20:19.989][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-15 22:20:19.990][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:19.991][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:20:19.993][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:19.994][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:20:19.995][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:20:19.996][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:20:19.998][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:20:19.999][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:20:20.000][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.001][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-15 22:20:20.003][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:20:20.004][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:20:20.005][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.006][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:20:20.006][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:20:20.006][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:20:20.006][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:20:20.006][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:20:20.008][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:20:20.009][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:20:20.010][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:20:20.011][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:20:20.018][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:20:20.019][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:20:20.020][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:20:20.021][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:20:20.022][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:20:20.023][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:20:20.025][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:20:20.026][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:20:20.027][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-15 22:20:20.029][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:20:20.030][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:20:20.032][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.033][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:20:20.034][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.035][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:20:20.037][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:20:20.038][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:20:20.039][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:20:20.040][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:20:20.041][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.043][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-15 22:20:20.044][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:20:20.045][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:20:20.046][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.047][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:20:20.047][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:20:20.047][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:20:20.047][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:20:20.047][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:20:20.049][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:20:20.050][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:20:20.051][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:20:20.052][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:20:20.053][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:20:20.054][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:20:20.056][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:20:20.057][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:20:20.058][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:20:20.059][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:20:20.060][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:20:20.062][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:20:20.063][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-15 22:20:20.065][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.067][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-15 22:20:20.068][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.069][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:20:20.071][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.072][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:20:20.073][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:20:20.074][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:20:20.076][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:20:20.077][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:20:20.078][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:20:20.080][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-15 22:20:20.081][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:20:20.082][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:20:20.084][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.085][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:20:20.086][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:20:20.087][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:20:20.088][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:20:20.090][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:20:20.091][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:20:20.092][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:20:20.093][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:20:20.094][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:20:20.096][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:20:20.097][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:20:20.098][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:20:20.100][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:20:20.103][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-15 22:20:20.106][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.108][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:20:20.110][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.112][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:20:20.114][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.116][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:20:20.118][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:20:20.120][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:20:20.122][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:20:20.124][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:20:20.126][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:20:20.128][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-15 22:20:20.130][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:20:20.132][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:20:20.134][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.136][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:20:20.138][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:20:20.140][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:20:20.141][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:20:20.143][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:20:20.145][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:20:20.147][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:20:20.149][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:20:20.151][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:20:20.153][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:20:20.155][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:20:20.156][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:20:20.157][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:20:20.160][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:20:20.161][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.168][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.DEBUG[2024-07-15 22:20:20.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.174][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.DEBUG[2024-07-15 22:20:20.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.181][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.DEBUG[2024-07-15 22:20:20.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.198][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[2024-07-15 22:20:20.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.214][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[2024-07-15 22:20:20.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.242][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.DEBUG[2024-07-15 22:20:20.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.253][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[2024-07-15 22:20:20.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.266][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-15 22:20:20.270][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-15 22:20:20.272][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-15 22:20:20.273][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-15 22:20:20.275][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:20:20.276][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-15 22:20:20.278][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-15 22:20:20.280][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-15 22:20:20.281][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-15 22:20:20.283][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-15 22:20:20.285][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:20:20.286][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-15 22:20:20.288][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-15 22:20:20.290][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-15 22:20:20.291][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-15 22:20:20.293][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-15 22:20:20.294][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-15 22:20:20.296][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-15 22:20:20.298][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:20:20.299][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-15 22:20:20.301][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-15 22:20:20.303][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-15 22:20:20.304][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-15 22:20:20.306][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-15 22:20:20.308][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-15 22:20:20.309][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-15 22:20:20.311][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-15 22:20:20.313][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-15 22:20:20.314][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-15 22:20:20.316][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-15 22:20:20.317][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-15 22:20:20.319][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-15 22:20:20.321][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-15 22:20:20.322][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-15 22:20:20.324][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-15 22:20:20.326][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-15 22:20:20.327][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-15 22:20:20.329][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-15 22:20:20.331][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-15 22:20:20.332][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-15 22:20:20.334][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-15 22:20:20.336][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-15 22:20:20.337][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-15 22:20:20.339][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-15 22:20:20.340][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-15 22:20:20.342][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-15 22:20:20.344][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-15 22:20:20.345][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-15 22:20:20.347][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-15 22:20:20.349][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-15 22:20:20.350][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-15 22:20:20.352][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-15 22:20:20.354][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-15 22:20:20.355][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-15 22:20:20.357][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-15 22:20:20.359][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-15 22:20:20.360][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-15 22:20:20.362][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-15 22:20:20.364][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-15 22:20:20.365][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-15 22:20:20.367][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-15 22:20:20.369][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-15 22:20:20.370][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-15 22:20:20.372][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-15 22:20:20.374][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-15 22:20:20.375][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-15 22:20:20.377][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:20:20.378][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:20:20.380][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-15 22:20:20.381][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-15 22:20:20.383][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-15 22:20:20.385][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-15 22:20:20.386][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-15 22:20:20.388][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-15 22:20:20.390][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-15 22:20:20.391][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-15 22:20:20.393][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-15 22:20:20.394][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-15 22:20:20.396][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-15 22:20:20.398][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-15 22:20:20.399][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-15 22:20:20.401][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-15 22:20:20.402][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-15 22:20:20.437][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-15 22:20:20.440][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:20:20.443][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:20:20.444][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.446][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.583][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.DEBUG[2024-07-15 22:20:20.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:20:20.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:20.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:20.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:20.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:20.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:20.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:20.601][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-15 22:20:20.613][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-15 22:20:20.616][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:20:20.617][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-15 22:20:20.619][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.621][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:20:20.623][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.625][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:20:20.626][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.627][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-15 22:20:20.628][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-15 22:20:20.629][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:20:20.631][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.632][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-15 22:20:20.633][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:20:20.634][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-15 22:20:20.634][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-15 22:20:20.634][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-15 22:20:20.634][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-15 22:20:20.634][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-15 22:20:20.634][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-15 22:20:20.634][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-15 22:20:20.634][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-15 22:20:20.634][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-15 22:20:20.634][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-15 22:20:20.634][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-15 22:20:20.636][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-15 22:20:20.637][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:20:20.637][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:20:20.637][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:20:20.638][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-15 22:20:20.639][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:20:20.640][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:20:20.642][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:20:20.643][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:20:20.644][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:20:20.645][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:20:20.646][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:20:20.646][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-15 22:20:20.647][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:20:20.649][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:20:20.650][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-15 22:20:20.651][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-15 22:20:20.651][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-15 22:20:20.656][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:20:20.658][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:20:20.660][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-15 22:20:20.662][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:20:20.663][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:20:20.665][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:20:21.039][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-15 22:20:21.041][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-15 22:20:21.046][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-15 22:20:21.050][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-15 22:20:21.055][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:20:21.056][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:20:21.058][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-15 22:20:21.059][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-15 22:20:21.084][biodb::testThat]
biodb.INFO [2024-07-15 22:20:21.086][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-07-15 22:20:21.088][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:20:21.090][biodb::testThat]
biodb.TRACE[2024-07-15 22:20:22.647][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-07-15 22:20:22.649][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:22.653][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:22.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:22.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:22.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:22.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:22.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:22.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:22.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:22.870][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:22.873][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:22.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:22.879][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:22.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:22.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:22.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:22.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:22.928][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:22.930][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:22.932][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:22.934][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:22.999][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:23.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:23.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.010][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:23.012][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:23.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.017][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.021][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:23.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:23.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.036][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:23.039][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:23.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.043][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.046][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:23.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:23.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.061][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:23.066][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:23.069][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.071][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.074][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:23.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:23.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.088][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:23.090][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:23.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.095][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.097][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:23.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:23.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.106][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:23.108][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:23.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.113][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.115][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:23.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:23.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.125][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:23.129][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:23.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.134][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:23.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:23.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.160][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:23.163][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:23.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.169][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.174][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:23.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:23.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.244][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:23.247][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:23.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.252][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.255][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:23.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:23.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.265][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:23.267][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:23.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.271][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.273][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:23.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:23.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:23.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:23.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:23.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:23.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:23.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:23.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:23.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:23.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:23.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:23.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:23.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:23.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:23.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:23.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:23.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:23.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:23.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:23.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:23.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:23.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:23.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:23.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:23.360][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-07-15 22:20:24.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:24.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:24.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:24.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:24.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:24.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:24.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:24.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:24.339][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:24.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:24.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:24.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:24.345][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:24.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:24.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:24.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:24.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:24.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:24.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:24.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:24.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:24.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:24.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:24.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:24.360][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-15 22:20:24.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-15 22:20:24.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:24.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:24.365][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-15 22:20:24.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-15 22:20:24.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:24.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:24.370][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-15 22:20:24.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-15 22:20:24.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:24.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:24.375][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-15 22:20:24.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-15 22:20:24.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:24.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:25.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:25.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:25.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:25.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:25.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:25.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:25.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:25.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:25.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:25.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:25.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:25.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:25.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:25.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:25.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:25.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:25.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:25.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:25.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:25.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:25.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:25.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:25.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:25.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:25.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:25.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:25.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:25.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:25.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:25.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:25.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:25.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:25.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:25.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:25.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:25.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:25.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:25.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:25.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:25.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:25.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:25.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:25.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:25.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:26.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:26.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:26.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:26.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:26.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:26.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.878][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:26.879][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:26.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.881][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:26.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:26.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:26.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:26.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:26.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:26.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:26.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:26.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.933][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:26.934][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:26.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.937][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:26.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:26.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.953][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:26.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:26.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.959][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:26.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:26.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.964][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:26.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:26.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.969][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:26.970][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:26.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.973][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.974][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:26.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:26.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.989][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:26.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:26.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.994][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:26.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:26.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:26.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:26.999][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:27.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:27.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.004][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:27.006][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:27.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.008][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.009][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:27.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:27.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:27.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:27.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:27.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:27.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:27.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:27.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.039][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:27.041][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:27.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.043][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:27.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:27.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.076][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.077][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.079][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.106][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:27.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:27.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.119][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:27.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:27.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.124][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:27.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:27.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.129][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:27.131][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:27.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.133][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.134][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:27.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:27.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.151][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-15 22:20:27.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:27.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.157][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-15 22:20:27.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:27.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.162][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-15 22:20:27.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:27.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.167][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-15 22:20:27.168][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:27.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.170][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.172][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-15 22:20:27.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:27.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.191][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.200][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.207][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.212][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.214][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.216][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.218][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.238][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:27.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:27.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.244][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:27.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:27.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.250][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:27.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:27.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.255][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:27.256][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:27.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.258][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.260][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:27.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:27.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.306][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.307][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.310][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:27.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:27.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.351][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:27.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:27.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.356][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:27.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:27.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.362][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:27.363][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:27.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.365][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.367][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:27.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:27.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.439][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:27.440][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:27.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.445][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.458][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:27.460][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:27.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.462][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.470][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:27.471][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:27.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.474][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.493][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:27.495][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:27.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.497][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.508][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.510][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.513][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.521][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.522][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.525][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.544][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:27.546][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:27.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.548][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.555][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.557][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.559][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.571][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-15 22:20:27.572][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:27.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.575][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.587][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:27.589][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:27.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.591][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.601][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:27.603][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:27.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.606][ef$get] fields variable is a list.
biodb.INFO [2024-07-15 22:20:27.631][biodb::testThat]
biodb.INFO [2024-07-15 22:20:27.632][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-07-15 22:20:27.633][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:20:27.634][biodb::testThat]
biodb.DEBUG[2024-07-15 22:20:27.647][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2024-07-15 22:20:27.654][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:20:27.671][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2024-07-15 22:20:27.673][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:20:27.677][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2024-07-15 22:20:27.684][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:20:27.705][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:27.707][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:27.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:27.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:27.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:27.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:27.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:27.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:27.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:27.738][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:27.740][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:27.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.744][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:27.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:27.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.767][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:27.769][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:27.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.771][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.773][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:27.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:27.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.778][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:27.780][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:27.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.783][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.785][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:27.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:27.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.793][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:27.795][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:27.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.799][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.801][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:27.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:27.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.810][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.812][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.816][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:27.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.823][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.824][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.827][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.829][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:27.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.836][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:27.838][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:27.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.842][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.844][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:27.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:27.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.852][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.854][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.858][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:27.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.869][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:27.871][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:27.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.882][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.885][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:27.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:27.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.893][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:27.895][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:27.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.899][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.901][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:27.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:27.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.910][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:27.912][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:27.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.916][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.917][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:27.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:27.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:27.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:27.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:27.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:27.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:27.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:27.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:27.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:27.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:27.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:27.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:27.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:27.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:27.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:27.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:27.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:27.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:27.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:27.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:27.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:27.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:27.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:27.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:27.997][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2024-07-15 22:20:27.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-07-15 22:20:28.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-07-15 22:20:28.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:28.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:28.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-07-15 22:20:28.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-07-15 22:20:28.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:28.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:28.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-07-15 22:20:28.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-07-15 22:20:28.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:28.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-15 22:20:28.026][biodb::testThat]
biodb.INFO [2024-07-15 22:20:28.027][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-07-15 22:20:28.028][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:20:28.030][biodb::testThat]
biodb.TRACE[2024-07-15 22:20:28.033][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:28.035][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:28.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:28.037][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:28.039][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-07-15 22:20:28.098][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:28.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:28.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:28.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:28.104][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:28.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:28.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:28.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:28.109][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:28.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:28.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:28.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:28.122][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-07-15 22:20:28.127][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-15 22:20:28.146][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:20:28.160][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-07-15 22:20:28.162][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:20:28.166][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-07-15 22:20:29.730][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:20:29.734][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:20:29.736][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-15 22:20:29.737][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:20:29.756][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-15 22:20:29.758][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-07-15 22:20:30.393][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:30.395][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:30.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.398][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.399][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:30.401][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:30.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.403][ef$get] fields variable is a list.
biodb.INFO [2024-07-15 22:20:30.420][biodb::testThat]
biodb.INFO [2024-07-15 22:20:30.421][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-07-15 22:20:30.422][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:20:30.423][biodb::testThat]
biodb.TRACE[2024-07-15 22:20:30.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:30.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:30.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:30.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:30.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.466][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:30.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:30.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:30.520][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:20:30.524][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:20:30.526][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-15 22:20:30.527][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:20:30.529][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-07-15 22:20:30.554][biodb::testThat]
biodb.INFO [2024-07-15 22:20:30.556][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-07-15 22:20:30.557][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:20:30.558][biodb::testThat]
biodb.TRACE[2024-07-15 22:20:30.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:30.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:30.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.590][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:30.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:30.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.615][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:30.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:30.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:30.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:30.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:30.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:30.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:30.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:30.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.635][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-15 22:20:30.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-15 22:20:30.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.640][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-15 22:20:30.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-15 22:20:30.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.645][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-15 22:20:30.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-15 22:20:30.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.649][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-15 22:20:30.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-15 22:20:30.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:30.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:30.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.674][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:30.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:30.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.679][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:30.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:30.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.684][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:30.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:30.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:30.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:30.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:30.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:30.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.698][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-15 22:20:30.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-15 22:20:30.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.703][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-15 22:20:30.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-15 22:20:30.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.708][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-15 22:20:30.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-15 22:20:30.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:30.718][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-15 22:20:30.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-15 22:20:30.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:30.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-15 22:20:30.731][biodb::testThat]
biodb.INFO [2024-07-15 22:20:30.732][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-07-15 22:20:30.733][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:20:30.735][biodb::testThat]
biodb.INFO [2024-07-15 22:20:30.746][biodb::testThat]
biodb.INFO [2024-07-15 22:20:30.747][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-07-15 22:20:30.748][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:20:30.749][biodb::testThat]
biodb.INFO [2024-07-15 22:20:30.760][biodb::testThat]
biodb.INFO [2024-07-15 22:20:30.762][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-07-15 22:20:30.763][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:20:30.764][biodb::testThat]
biodb.DEBUG[2024-07-15 22:20:30.768][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-07-15 22:20:36.827][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-07-15 22:20:37.704][biodb::testThat]
biodb.INFO [2024-07-15 22:20:37.705][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-07-15 22:20:37.707][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:20:37.708][biodb::testThat]
biodb.DEBUG[2024-07-15 22:20:38.111][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2024-07-15 22:20:38.530][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:38.531][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:38.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:38.534][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:38.535][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:38.537][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:38.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:38.539][ef$get] fields variable is a list.
biodb.INFO [2024-07-15 22:20:38.541][biodb::testThat]
biodb.INFO [2024-07-15 22:20:38.543][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2024-07-15 22:20:38.545][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:20:38.546][biodb::testThat]
biodb.TRACE[2024-07-15 22:20:38.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:38.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:38.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:38.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:38.570][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:38.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:38.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:38.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:38.575][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:38.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:38.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:38.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:38.692][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:20:38.696][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:20:38.698][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-15 22:20:38.700][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:20:38.702][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-15 22:20:38.769][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:20:38.773][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:20:38.775][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-15 22:20:38.777][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:20:38.779][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-07-15 22:20:38.813][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-15 22:20:38.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-15 22:20:38.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:38.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:38.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:38.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:38.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:38.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:38.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:38.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:38.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:38.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:38.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:38.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:38.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:38.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:38.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:38.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:38.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:38.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:38.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:38.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:38.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:38.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:38.859][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:20:38.863][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:20:38.865][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-15 22:20:38.867][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:20:38.880][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-15 22:20:38.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:38.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:38.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:38.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:38.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:38.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:38.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:38.904][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-07-15 22:20:38.973][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:20:38.976][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-07-15 22:20:38.979][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:20:38.982][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:20:38.984][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:20:38.986][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:20:38.988][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:20:38.990][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:20:38.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:38.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:38.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:39.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:39.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:39.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:39.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:39.580][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2024-07-15 22:20:39.589][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:20:39.590][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:20:39.592][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2024-07-15 22:20:39.958][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2024-07-15 22:20:40.336][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:20:40.339][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2024-07-15 22:20:40.356][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2024-07-15 22:20:40.361][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2024-07-15 22:20:40.365][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:20:40.367][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:40.369][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:40.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:40.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:40.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:40.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:40.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:40.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:40.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:40.395][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:40.396][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:40.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.399][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:40.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:40.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.405][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:40.407][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:40.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.409][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.411][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:40.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:40.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.416][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:40.417][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:40.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.419][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.421][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:40.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:40.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.427][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:40.428][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:40.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.430][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:40.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:40.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.437][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:40.438][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:40.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.441][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:40.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:40.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.447][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:40.449][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:40.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.451][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.453][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:40.460][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:40.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.464][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.465][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:40.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:40.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.471][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:40.472][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:40.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.474][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:40.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:40.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.481][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:40.483][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:40.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.486][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.487][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:40.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:40.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.493][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:40.494][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:40.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.497][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.498][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:40.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:40.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.503][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:40.505][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:40.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.507][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.509][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:40.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:40.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:40.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:40.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:40.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:40.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:40.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:40.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:40.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:40.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:40.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:40.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:40.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:40.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:40.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:40.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:40.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:40.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:40.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:40.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:40.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:40.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:40.578][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-07-15 22:20:40.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:40.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:40.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:40.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:40.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:40.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:40.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:40.627][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:20:40.633][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:20:40.635][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-15 22:20:40.637][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:20:40.648][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-15 22:20:40.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:40.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:40.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:40.676][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:40.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:40.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:40.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:40.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:40.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:40.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:40.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:40.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:40.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:40.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:40.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:40.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:40.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:40.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:40.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:40.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:40.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:40.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:40.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:40.728][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-07-15 22:20:40.730][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:20:40.732][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-07-15 22:20:40.734][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:20:40.736][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:20:40.737][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:20:40.738][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:20:40.740][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:20:40.741][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:20:40.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:40.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:40.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:40.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:40.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:40.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:40.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:40.780][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2024-07-15 22:20:40.797][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:20:40.799][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:20:40.818][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2024-07-15 22:20:41.190][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2024-07-15 22:20:41.555][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:20:41.558][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2024-07-15 22:20:41.563][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2024-07-15 22:20:41.569][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2024-07-15 22:20:41.573][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:20:41.575][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:41.577][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:41.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:41.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:41.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:41.599][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:41.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:41.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:41.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:41.613][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:41.617][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:41.618][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.620][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:41.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:41.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.631][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:41.633][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:41.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.636][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.638][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:41.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:41.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.643][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:41.644][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:41.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.647][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.648][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:41.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:41.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.654][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:41.655][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:41.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.658][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.661][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:41.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:41.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.669][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:41.671][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:41.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.675][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:41.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:41.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.687][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:41.689][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:41.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.693][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.695][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:41.698][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:41.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.700][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.702][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:41.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:41.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.707][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:41.708][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:41.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.711][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:41.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:41.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.717][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:41.719][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:41.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.721][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.723][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:41.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:41.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.728][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:41.729][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:41.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.732][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.733][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:41.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:41.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.738][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:41.740][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:41.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.742][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.744][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:41.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:41.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:41.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:41.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:41.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:41.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:41.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:41.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:41.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:41.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:41.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:41.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:41.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:41.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:41.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:41.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:41.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:41.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:41.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:41.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:41.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:41.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:41.811][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-07-15 22:20:41.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:41.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:41.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:41.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:41.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:41.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:41.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:41.896][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:20:41.900][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:20:41.902][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-15 22:20:41.904][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:20:41.906][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-15 22:20:41.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:41.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:41.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:41.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:41.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:41.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:41.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:41.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:41.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:41.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.979][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:41.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:41.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:41.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:41.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:41.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:41.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:41.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:41.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:41.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:42.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:42.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:42.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:42.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:42.014][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-07-15 22:20:42.016][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:20:42.019][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-07-15 22:20:42.022][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:20:42.024][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:20:42.026][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:20:42.029][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:20:42.031][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:20:42.033][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:20:42.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:42.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:42.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:42.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:42.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:42.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:42.057][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[2024-07-15 22:20:42.059][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2024-07-15 22:20:42.063][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:20:42.064][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:20:42.065][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2024-07-15 22:20:42.435][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2024-07-15 22:20:42.798][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:20:42.800][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2024-07-15 22:20:42.805][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2024-07-15 22:20:42.810][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2024-07-15 22:20:42.814][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:20:42.815][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:42.817][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:42.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:42.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:42.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:42.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:42.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:42.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:42.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:42.844][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:42.846][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:42.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.848][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:42.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:42.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.857][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:42.858][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:42.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.861][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.863][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:42.865][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:42.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.868][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.870][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:42.872][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:42.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.882][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.885][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:42.887][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:42.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.890][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.891][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:42.893][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:42.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.895][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.897][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:42.898][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:42.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.901][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.902][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:42.904][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:42.905][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.906][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.908][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:42.910][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:42.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.912][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.914][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:42.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:42.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.919][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:42.920][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:42.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.923][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.924][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:42.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:42.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.929][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:42.931][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:42.932][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.933][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:42.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:42.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:42.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:42.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:42.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:42.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:42.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:42.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:42.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:42.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:42.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:42.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:42.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:42.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:42.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:42.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:42.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:42.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:42.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:42.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:42.988][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-07-15 22:20:42.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:42.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:42.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:42.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:42.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:42.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:42.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:43.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:43.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:43.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:43.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:43.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:43.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:43.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:43.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:43.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:43.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:43.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:43.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:43.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:43.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:43.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:43.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:43.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:43.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:43.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:43.050][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-07-15 22:20:43.052][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:20:43.055][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-07-15 22:20:43.058][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:20:43.061][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:20:43.063][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:20:43.064][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:20:43.066][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:20:43.067][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:20:43.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:43.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:43.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:43.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:43.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:43.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:43.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:43.089][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2024-07-15 22:20:43.139][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:20:43.141][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:20:43.143][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2024-07-15 22:20:43.504][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2024-07-15 22:20:43.869][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:20:43.872][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2024-07-15 22:20:43.877][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2024-07-15 22:20:43.882][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2024-07-15 22:20:43.885][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:20:43.887][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:43.889][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:43.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:43.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:43.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:43.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:43.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:43.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:43.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:43.917][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:43.919][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:43.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:43.923][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:43.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:43.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:43.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:43.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:43.934][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:43.937][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:43.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:43.941][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:43.943][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:43.944][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:43.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:43.947][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:43.949][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:43.950][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:43.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:43.960][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:43.962][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:43.964][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:43.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:43.967][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:43.969][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:43.970][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:43.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:43.974][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:43.976][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:43.979][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:43.981][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:43.983][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:43.985][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:43.987][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:43.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:43.991][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:43.994][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:43.995][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:43.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:43.998][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.000][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:44.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:44.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.005][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:44.007][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:44.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.009][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.011][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:44.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:44.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.016][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:44.017][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:44.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.020][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:44.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:44.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:44.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:44.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:44.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:44.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:44.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:44.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:44.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:44.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:44.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:44.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:44.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:44.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:44.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:44.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:44.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:44.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:44.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:44.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:44.074][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-07-15 22:20:44.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:44.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:44.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:44.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:44.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:44.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:44.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:44.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:44.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:44.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:44.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:44.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:44.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:44.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:44.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:44.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:44.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:44.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:44.139][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-07-15 22:20:44.141][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:20:44.144][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-07-15 22:20:44.147][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:20:44.149][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:20:44.151][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:20:44.153][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:20:44.154][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:20:44.156][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:20:44.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:44.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:44.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:44.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:44.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:44.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:44.183][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[2024-07-15 22:20:44.184][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2024-07-15 22:20:44.188][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:20:44.189][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:20:44.191][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2024-07-15 22:20:44.561][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2024-07-15 22:20:44.923][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:20:44.926][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2024-07-15 22:20:44.932][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2024-07-15 22:20:44.937][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2024-07-15 22:20:44.941][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:20:44.943][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:44.946][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:44.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:44.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:44.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:44.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:44.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:44.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:44.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:44.978][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:44.981][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:44.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.984][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:44.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:44.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:44.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:44.995][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:44.997][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:44.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.001][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.003][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:45.005][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:45.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.009][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.021][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:45.024][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:45.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.028][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.030][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:45.033][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:45.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.036][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.039][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:45.041][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:45.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.045][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.047][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:45.049][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:45.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.053][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.055][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:45.057][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:45.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.061][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.064][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:45.066][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:45.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.070][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.073][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:45.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:45.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.081][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:45.083][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:45.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.087][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.089][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:45.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:45.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.098][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:45.100][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:45.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.104][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:45.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:45.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:45.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:45.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:45.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:45.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:45.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:45.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:45.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:45.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:45.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:45.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:45.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:45.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:45.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:45.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:45.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:45.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:45.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:45.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:45.157][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-07-15 22:20:45.158][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:45.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:45.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:45.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:45.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:45.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:45.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:45.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:45.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:45.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:45.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:45.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:45.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:45.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:45.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:45.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:45.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:45.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:45.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:45.214][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[2024-07-15 22:20:45.215][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-07-15 22:20:45.217][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:20:45.219][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-07-15 22:20:45.220][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:20:45.222][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:20:45.223][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:20:45.224][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:20:45.226][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:20:45.227][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:20:45.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:45.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:45.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:45.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:45.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:45.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:45.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:45.357][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2024-07-15 22:20:45.360][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:20:45.362][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:20:45.363][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2024-07-15 22:20:45.731][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2024-07-15 22:20:46.100][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:20:46.103][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2024-07-15 22:20:46.109][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2024-07-15 22:20:46.113][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2024-07-15 22:20:46.116][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:20:46.118][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:46.119][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:46.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:46.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:46.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:46.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:46.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:46.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:46.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:46.145][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:46.147][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:46.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.149][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:46.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:46.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.158][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:46.160][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:46.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.163][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.164][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:46.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:46.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.177][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:46.178][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:46.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.181][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.182][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:46.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:46.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.188][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:46.189][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:46.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.192][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:46.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:46.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.199][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:46.200][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:46.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.203][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.204][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:46.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:46.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.210][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:46.211][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:46.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.214][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.215][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:46.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:46.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.220][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:46.222][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:46.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.224][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.226][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:46.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:46.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.231][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:46.232][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:46.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.235][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:46.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:46.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.241][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:46.243][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:46.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.245][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.247][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:46.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:46.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.252][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:46.254][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:46.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.256][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.258][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:46.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:46.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.263][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:46.265][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:46.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.267][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.269][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:46.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:46.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:46.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:46.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:46.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:46.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:46.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:46.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:46.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:46.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:46.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:46.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:46.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:46.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:46.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:46.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:46.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:46.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:46.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:46.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:46.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:46.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:46.343][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-07-15 22:20:46.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:46.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:46.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:46.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:46.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:46.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:46.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:46.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:46.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:46.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:46.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:46.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:46.403][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:46.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:46.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:46.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:46.412][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-07-15 22:20:46.414][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:20:46.417][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-07-15 22:20:46.420][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:20:46.422][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:20:46.425][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:20:46.427][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:20:46.429][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:20:46.431][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:20:46.436][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:46.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:46.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:46.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:46.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:46.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:46.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:46.461][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2024-07-15 22:20:46.465][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:20:46.466][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:20:46.468][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2024-07-15 22:20:46.831][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2024-07-15 22:20:47.198][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:20:47.201][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2024-07-15 22:20:47.205][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2024-07-15 22:20:47.209][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2024-07-15 22:20:47.212][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:20:47.220][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:47.222][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:47.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:47.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:47.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:47.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:47.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:47.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:47.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:47.243][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:47.245][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:47.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.247][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:47.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:47.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.254][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:47.255][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:47.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.258][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.259][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:47.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:47.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.264][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:47.266][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:47.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.268][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.270][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:47.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:47.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.275][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:47.276][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:47.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.279][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.281][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:47.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:47.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.289][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:47.291][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:47.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.293][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:47.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:47.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.300][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:47.301][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:47.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.303][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.305][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:47.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:47.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.310][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:47.311][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:47.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.314][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.315][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:47.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:47.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.320][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:47.322][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:47.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.324][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:47.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:47.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.331][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:47.332][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:47.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.335][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:47.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:47.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.341][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:47.343][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:47.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.351][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.353][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:47.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:47.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.358][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:47.360][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:47.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.362][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.364][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:47.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:47.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:47.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:47.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:47.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:47.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:47.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:47.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:47.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:47.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:47.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:47.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:47.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:47.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:47.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:47.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:47.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:47.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:47.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:47.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:47.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:47.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:47.419][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-07-15 22:20:47.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:47.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:47.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:47.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:47.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:47.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:47.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:47.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:47.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:47.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:47.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:47.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:47.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:47.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:47.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:47.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:47.450][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-07-15 22:20:47.451][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:20:47.453][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-07-15 22:20:47.455][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:20:47.456][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:20:47.457][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:20:47.459][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:20:47.460][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:20:47.461][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:20:47.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:47.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:47.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:47.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:47.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:47.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:47.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:47.495][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2024-07-15 22:20:47.500][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:20:47.502][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:20:47.504][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2024-07-15 22:20:47.868][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2024-07-15 22:20:48.241][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:20:48.245][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2024-07-15 22:20:48.253][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2024-07-15 22:20:48.259][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2024-07-15 22:20:48.263][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:20:48.266][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:48.269][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:48.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:48.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:48.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:48.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:48.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:48.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:48.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:48.304][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:48.306][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:48.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.309][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:48.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:48.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.316][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:48.317][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:48.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.320][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.321][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:48.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:48.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.327][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:48.328][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:48.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.331][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.332][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:48.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:48.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.337][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:48.339][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:48.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.341][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.343][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:48.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:48.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.348][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:48.350][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:48.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.352][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.354][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:48.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:48.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.359][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:48.360][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:48.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.363][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.364][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:48.366][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:48.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.375][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.377][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:48.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:48.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.383][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:48.385][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:48.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.387][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:48.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:48.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.396][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:48.398][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:48.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.402][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.405][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:48.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:48.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.411][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:48.413][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:48.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.415][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.417][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:48.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:48.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.423][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:48.424][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:48.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.427][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.429][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:48.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:48.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:48.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:48.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:48.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:48.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:48.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:48.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:48.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:48.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:48.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:48.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:48.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:48.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:48.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:48.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:48.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:48.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:48.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:48.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:48.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:48.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:48.491][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-07-15 22:20:48.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:48.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:48.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:48.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:48.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:48.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:48.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:48.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:48.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:48.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:48.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:48.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:48.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:48.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:48.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:48.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:48.541][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-07-15 22:20:48.543][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:20:48.546][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-07-15 22:20:48.549][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:20:48.551][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:20:48.553][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:20:48.555][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:20:48.556][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:20:48.558][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:20:48.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:48.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:48.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:48.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:48.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:48.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:48.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:48.582][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2024-07-15 22:20:48.587][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:20:48.589][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:20:48.592][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2024-07-15 22:20:48.965][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2024-07-15 22:20:49.354][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:20:49.358][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2024-07-15 22:20:49.364][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2024-07-15 22:20:49.368][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2024-07-15 22:20:49.371][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:20:49.372][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:49.374][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:49.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:49.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:49.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:49.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:49.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:49.394][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:49.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:49.398][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:49.399][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:49.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.402][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:49.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:49.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.409][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:49.410][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:49.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.413][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.414][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:49.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:49.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.420][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:49.421][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:49.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.424][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.425][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:49.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:49.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.438][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:49.440][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:49.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.445][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.447][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:49.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:49.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.456][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:49.458][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:49.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.463][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:49.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:49.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.474][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:49.477][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:49.479][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.481][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.483][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:49.486][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:49.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.490][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.493][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:49.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:49.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.502][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:49.504][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:49.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.508][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:49.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:49.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.520][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:49.522][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:49.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.526][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.529][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:49.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:49.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.538][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:49.540][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:49.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.545][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.547][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:49.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:49.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.556][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:49.558][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:49.560][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.561][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.564][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:49.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:49.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:49.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:49.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:49.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:49.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:49.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:49.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:49.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:49.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:49.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:49.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:49.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:49.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:49.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:49.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:49.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:49.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:49.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:49.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:49.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:49.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:49.647][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-07-15 22:20:49.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:49.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:49.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:49.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:49.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:49.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:49.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:49.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:49.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:49.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:49.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:49.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:49.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:49.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:49.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:49.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:49.691][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-07-15 22:20:49.693][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:20:49.697][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-07-15 22:20:49.699][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:20:49.702][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:20:49.704][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:20:49.706][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:20:49.708][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:20:49.710][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:20:49.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:49.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:49.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:49.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:49.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:49.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:49.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:49.737][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2024-07-15 22:20:49.741][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:20:49.742][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:20:49.744][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2024-07-15 22:20:50.116][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2024-07-15 22:20:50.479][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:20:50.483][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2024-07-15 22:20:50.488][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2024-07-15 22:20:50.492][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2024-07-15 22:20:50.495][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:20:50.496][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:50.498][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:50.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:50.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:50.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:50.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:50.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:50.511][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:50.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:50.522][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:50.524][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:50.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.526][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:50.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:50.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.533][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:50.534][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:50.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.537][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.538][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:50.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:50.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.543][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:50.545][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:50.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.547][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.549][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:50.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:50.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.555][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:50.557][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:50.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.559][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:50.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:50.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.566][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:50.567][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:50.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.569][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.571][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:50.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:50.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.576][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:50.578][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:50.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.580][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.581][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:50.583][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:50.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.585][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.587][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:50.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:50.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.592][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:50.593][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:50.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.596][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:50.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:50.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.602][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:50.604][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:50.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.606][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.608][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:50.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:50.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.613][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:50.614][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:50.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.616][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.618][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:50.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:50.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.623][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:50.624][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:50.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.627][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.628][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:50.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:50.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:50.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:50.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:50.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:50.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:50.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:50.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:50.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:50.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:50.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:50.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:50.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:50.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:50.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:50.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:50.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:50.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:50.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:50.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:50.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:50.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:50.689][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-07-15 22:20:50.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:50.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:50.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:50.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:50.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:50.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:50.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:50.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:50.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:50.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:50.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:50.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:52.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:52.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:52.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:52.214][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[2024-07-15 22:20:52.216][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-07-15 22:20:52.217][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:20:52.219][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-07-15 22:20:52.221][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:20:52.222][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:20:52.224][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:20:52.225][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:20:52.226][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:20:52.227][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:20:52.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:52.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:52.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:52.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:52.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:52.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:52.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:52.245][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2024-07-15 22:20:52.248][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:20:52.249][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:20:52.256][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2024-07-15 22:20:52.633][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2024-07-15 22:20:53.005][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:20:53.008][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2024-07-15 22:20:53.014][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2024-07-15 22:20:53.018][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2024-07-15 22:20:53.020][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:20:53.022][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:53.023][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:53.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:53.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:53.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:56.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:56.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:56.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:56.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:56.582][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:56.584][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:56.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.586][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:56.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:56.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.593][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:56.594][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:56.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.597][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.598][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:56.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:56.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.604][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:56.605][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:56.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.608][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.609][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:56.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:56.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.614][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:56.616][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:56.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.618][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:56.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:56.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.625][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:56.627][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:56.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.629][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:56.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:56.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.639][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:56.641][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:56.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.644][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.646][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:56.647][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:56.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.649][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.651][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:56.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:56.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.656][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:56.658][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:56.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.660][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:56.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:56.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.848][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:56.851][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:56.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.853][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.855][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:56.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:56.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.860][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:56.861][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:56.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.863][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.865][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:56.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:56.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.870][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:56.871][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:56.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.873][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.875][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:56.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:56.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:56.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:56.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:56.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:56.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:56.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:56.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:56.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:56.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:56.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:56.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:56.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:56.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:56.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:56.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:56.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:56.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:56.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:56.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:56.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:56.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:56.928][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-07-15 22:20:56.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:56.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:56.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:56.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:56.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:56.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:56.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:56.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:56.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:56.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:56.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:56.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:57.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:57.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:57.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:57.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:57.496][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-07-15 22:20:57.497][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:20:57.499][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-07-15 22:20:57.501][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:20:57.502][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:20:57.503][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:20:57.505][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:20:57.506][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:20:57.508][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:20:57.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:57.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:57.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:57.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:57.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:57.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:57.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:57.532][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2024-07-15 22:20:57.536][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:20:57.537][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:20:57.540][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2024-07-15 22:20:57.913][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2024-07-15 22:20:58.279][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:20:58.282][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2024-07-15 22:20:58.288][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2024-07-15 22:20:58.292][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2024-07-15 22:20:58.295][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:20:58.296][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:58.298][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:58.300][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:58.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:58.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:58.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:58.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:58.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:58.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:20:58.318][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:58.320][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:58.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.323][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:58.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:58.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.330][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:58.332][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:58.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.335][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.336][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:20:58.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:20:58.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.342][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:58.344][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:58.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.347][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.348][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:20:58.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:20:58.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.354][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:58.356][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:58.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.359][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.360][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:20:58.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:20:58.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.366][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:58.368][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:58.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.370][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.372][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:20:58.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:20:58.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.378][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:58.380][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:20:58.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.382][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.384][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:58.385][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:58.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.388][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.390][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:20:58.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:58.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.396][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:58.397][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:58.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.400][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:58.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:20:58.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.408][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:58.409][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:58.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.412][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.414][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:20:58.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:20:58.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.419][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:58.421][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:58.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.424][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.425][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:20:58.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:20:58.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.431][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:58.433][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:58.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.435][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.437][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:20:58.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:20:58.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:58.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:58.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:58.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:58.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:58.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:58.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:20:58.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:20:58.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:58.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:58.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:58.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:58.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:58.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:58.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:58.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:58.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:58.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:58.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:20:58.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:20:58.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:58.500][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-07-15 22:20:58.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:58.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:58.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:58.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:58.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:20:58.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:58.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:20:58.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:20:58.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:20:58.519][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:58.520][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:58.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:58.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:58.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:58.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:58.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:58.535][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-07-15 22:20:58.536][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:20:58.538][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-07-15 22:20:58.541][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:20:58.543][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:20:58.545][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:20:58.546][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:20:58.548][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:20:58.549][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:20:58.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:58.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:58.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:20:58.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:20:58.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:20:58.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:20:58.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:20:58.568][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2024-07-15 22:20:58.572][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:20:58.573][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:20:58.575][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2024-07-15 22:20:58.937][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2024-07-15 22:20:59.317][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:20:59.320][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2024-07-15 22:20:59.326][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2024-07-15 22:20:59.331][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2024-07-15 22:20:59.334][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:20:59.336][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:20:59.337][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:20:59.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:20:59.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:20:59.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:00.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:00.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:00.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:00.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:00.230][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:00.232][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:00.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.235][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:00.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:00.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.250][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:00.251][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:00.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.253][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.255][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:00.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:00.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.260][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:00.261][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:00.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.264][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.265][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:00.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:00.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.270][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:00.271][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:00.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.274][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.275][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:00.277][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:00.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.279][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.280][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:00.282][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:00.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.284][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.285][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:00.287][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:00.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.289][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.290][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:00.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:00.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.295][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:00.297][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:00.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.299][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:00.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:00.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.305][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:00.307][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:00.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.309][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.311][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:00.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:00.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.316][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:00.317][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:00.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.319][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.321][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:00.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:00.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.326][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:00.327][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:00.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.329][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:00.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:00.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:00.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:00.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:00.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:00.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:00.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:00.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:00.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:00.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:00.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:00.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:00.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:00.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:00.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:00.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:00.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:00.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:00.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:00.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:00.380][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-07-15 22:21:00.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:00.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:00.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.387][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:00.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:00.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:00.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:00.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:00.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:00.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:00.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:00.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:00.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:01.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:01.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:01.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:01.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:01.870][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-07-15 22:21:01.871][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:21:01.873][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-07-15 22:21:01.875][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:21:01.876][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:21:01.878][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:21:01.879][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:21:01.880][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:21:01.882][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:21:01.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:01.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:01.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:01.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:01.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:01.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:01.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:01.972][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2024-07-15 22:21:01.975][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:01.976][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:01.978][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2024-07-15 22:21:02.353][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2024-07-15 22:21:02.718][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:02.721][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2024-07-15 22:21:02.727][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2024-07-15 22:21:02.731][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2024-07-15 22:21:02.733][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:21:02.734][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:21:02.736][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:21:02.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:02.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:02.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:03.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:03.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:03.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:03.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:03.156][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.158][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.162][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.169][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:03.171][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:03.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.174][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.176][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:03.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:03.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.185][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:03.187][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:03.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.191][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.193][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:03.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:03.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.201][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:03.203][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:03.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.207][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.210][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:03.212][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:03.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.216][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.218][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:03.220][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:03.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.224][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.226][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:03.228][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.232][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.234][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:03.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.242][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:03.244][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:03.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.248][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:03.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:03.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.258][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:03.260][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:03.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.263][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.266][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:03.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:03.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.272][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:03.273][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:03.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.275][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.277][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:03.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:03.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.282][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:03.283][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:03.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.285][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:03.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:03.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:03.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:03.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:03.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:03.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:03.337][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-07-15 22:21:03.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:03.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:03.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:03.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:03.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:03.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:03.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:03.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:03.429][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-07-15 22:21:03.430][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:21:03.432][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-07-15 22:21:03.434][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:03.445][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2024-07-15 22:21:03.447][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:21:03.448][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:21:03.450][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:21:03.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:03.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:03.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:03.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:03.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:03.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:03.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:03.472][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.473][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.476][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.492][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:03.493][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:03.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.495][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.497][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:03.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:03.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.502][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:03.503][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:03.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.506][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.507][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:03.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:03.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.512][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:03.514][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:03.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.516][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:03.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:03.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.522][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:03.524][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:03.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.526][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.528][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:03.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:03.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.533][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:03.534][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:03.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.536][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.538][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:03.539][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.541][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.543][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:03.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.548][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:03.549][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:03.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.551][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:03.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:03.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.558][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:03.559][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:03.560][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.561][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.563][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:03.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:03.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.568][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:03.569][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:03.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.572][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.573][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:03.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:03.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.578][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:03.580][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:03.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.582][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.584][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:03.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:03.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:03.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:03.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:03.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:03.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:03.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:03.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:03.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:03.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:03.638][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-07-15 22:21:03.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:03.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:03.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:03.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:03.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:03.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:03.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:04.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:04.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:04.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:04.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:04.100][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-07-15 22:21:04.102][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:21:04.104][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-07-15 22:21:04.106][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:04.117][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2024-07-15 22:21:04.119][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:21:04.120][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:21:04.122][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:21:04.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:04.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:04.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:04.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:04.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:04.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:04.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:04.139][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.140][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.141][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.142][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.149][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:04.150][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:04.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.152][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.154][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:04.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:04.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.159][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:04.160][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:04.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.163][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.164][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:04.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:04.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.169][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:04.170][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:04.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.173][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.174][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:04.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:04.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.179][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:04.180][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:04.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.183][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.184][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:04.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:04.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.189][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:04.190][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:04.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.193][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.194][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:04.195][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.197][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.198][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.199][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:04.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.204][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:04.205][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:04.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.208][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:04.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:04.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.214][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:04.215][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:04.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.218][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.219][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:04.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:04.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.224][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:04.225][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:04.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.228][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.229][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:04.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:04.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.234][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:04.235][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:04.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.238][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.239][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:04.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:04.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:04.292][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-07-15 22:21:04.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:04.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:04.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:04.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:04.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:04.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:04.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:04.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:04.323][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-07-15 22:21:04.325][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:21:04.327][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-07-15 22:21:04.329][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:04.342][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2024-07-15 22:21:04.344][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:21:04.347][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:21:04.349][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:21:04.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:04.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:04.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:04.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:04.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:04.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:04.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:04.376][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.377][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.379][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.386][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:04.387][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:04.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.390][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.391][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:04.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:04.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.402][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:04.404][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:04.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.408][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.410][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:04.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:04.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.418][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:04.420][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:04.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.424][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:04.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:04.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.434][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:04.436][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:04.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.439][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:04.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:04.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.449][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:04.451][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:04.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.453][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.455][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:04.456][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.459][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.462][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:04.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.470][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:04.473][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:04.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.475][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:04.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:04.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.483][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:04.484][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:04.485][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.486][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.488][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:04.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:04.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.493][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:04.494][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:04.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.497][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.499][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:04.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:04.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.504][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:04.505][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:04.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.508][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.509][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:04.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:04.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:04.574][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-07-15 22:21:04.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:04.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:04.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:04.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:04.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:04.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:04.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:04.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:04.622][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-07-15 22:21:04.624][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:21:04.626][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-07-15 22:21:04.628][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:04.640][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2024-07-15 22:21:04.642][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:21:04.643][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:21:04.645][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:21:04.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:04.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:04.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:04.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:04.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:04.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:04.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:04.673][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.675][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.679][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.687][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:04.688][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:04.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.691][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.692][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:04.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:04.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.698][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:04.699][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:04.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.701][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.703][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:04.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:04.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.708][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:04.709][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:04.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.712][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.713][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:04.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:04.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.719][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:04.720][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:04.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.722][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.724][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:04.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:04.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.729][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:04.730][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:04.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.733][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.735][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:04.736][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.738][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.740][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:04.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.746][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:04.747][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:04.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.750][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:04.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:04.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.757][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:04.758][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:04.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.761][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.763][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:04.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:04.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.768][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:04.769][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:04.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.772][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.773][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:04.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:04.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.779][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:04.780][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:04.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.782][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.784][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:04.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:04.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:04.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:04.850][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-07-15 22:21:04.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:04.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:04.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:04.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:04.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:04.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:04.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:04.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:04.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:04.886][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-07-15 22:21:04.887][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:21:04.889][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-07-15 22:21:04.891][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:04.904][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2024-07-15 22:21:04.906][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:21:04.908][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:21:04.909][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:21:04.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:04.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:04.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:04.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:04.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:04.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:04.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:04.936][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.938][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.940][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.941][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:04.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:04.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.951][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:04.953][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:04.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.957][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.959][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:04.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:04.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.967][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:04.970][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:04.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.973][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.976][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:04.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:04.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.988][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:04.990][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:04.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.992][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:04.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:04.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:04.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:04.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.001][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:05.003][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:05.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.007][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:05.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:05.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.017][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:05.019][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:05.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.023][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.026][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:05.028][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.032][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.034][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:05.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.042][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:05.044][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:05.046][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.047][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:05.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:05.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.054][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:05.055][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:05.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.058][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.060][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:05.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:05.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.067][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:05.069][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:05.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.073][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.075][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:05.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:05.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.081][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:05.082][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:05.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.084][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.086][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:05.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:05.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:05.144][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-07-15 22:21:05.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:05.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:05.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:05.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:05.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:05.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:05.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:05.183][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[2024-07-15 22:21:05.185][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-07-15 22:21:05.187][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:21:05.191][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-07-15 22:21:05.193][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:05.211][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2024-07-15 22:21:05.213][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:21:05.216][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:21:05.219][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:21:05.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:05.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:05.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:05.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:05.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:05.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:05.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:05.242][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.244][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.248][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.258][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:05.261][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:05.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.265][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.267][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:05.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:05.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.275][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:05.277][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:05.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.281][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.284][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:05.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:05.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.292][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:05.295][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:05.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.298][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:05.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:05.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.309][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:05.312][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:05.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.315][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.318][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:05.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:05.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.326][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:05.328][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:05.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.332][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.335][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:05.337][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.341][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.343][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:05.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.352][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:05.354][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:05.356][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.358][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:05.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:05.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.369][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:05.372][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:05.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.376][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.378][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:05.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:05.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.387][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:05.389][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:05.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.393][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.396][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:05.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:05.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.404][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:05.406][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:05.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.410][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.412][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:05.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:05.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:05.495][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-07-15 22:21:05.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.505][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:05.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:05.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:05.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:05.541][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:05.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:05.545][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:05.547][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.DEBUG[2024-07-15 22:21:05.550][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-07-15 22:21:05.552][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:21:05.555][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-07-15 22:21:05.558][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:05.570][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2024-07-15 22:21:05.572][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:21:05.574][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:21:05.576][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:21:05.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:05.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:05.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:05.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:05.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:05.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:05.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:05.615][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.617][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.621][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.629][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:05.630][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:05.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.633][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.634][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:05.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:05.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.640][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:05.641][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:05.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.643][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.645][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:05.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:05.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.650][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:05.652][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:05.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.654][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.656][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:05.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:05.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.666][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:05.668][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:05.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.670][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:05.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:05.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.677][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:05.678][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:05.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.681][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.682][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:05.683][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.686][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.687][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:05.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.693][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:05.694][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:05.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.696][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.698][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:05.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:05.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.703][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:05.704][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:05.705][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.707][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.708][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:05.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:05.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.713][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:05.715][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:05.716][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.717][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.719][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:05.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:05.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.724][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:05.725][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:05.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.727][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.729][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:05.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:05.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:05.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:05.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:05.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:05.786][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-07-15 22:21:05.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:05.854][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:05.858][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:05.860][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-15 22:21:05.862][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:05.865][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-15 22:21:05.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:05.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:05.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:05.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:05.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:05.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:05.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:05.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:05.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:05.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:05.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:05.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:05.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:05.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:05.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:05.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:05.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:05.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:05.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:05.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:05.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:05.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:05.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:05.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:05.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:05.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:05.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.027][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:06.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:06.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.113][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[2024-07-15 22:21:06.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:06.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:06.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.246][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.TRACE[2024-07-15 22:21:06.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:06.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:06.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:06.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:06.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.437][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[2024-07-15 22:21:06.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.446][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:06.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:06.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.569][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[2024-07-15 22:21:06.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:06.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:06.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:06.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:06.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:06.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:06.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:06.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:06.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:06.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:06.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:06.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:06.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:06.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:06.797][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:06.801][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:06.802][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2024-07-15 22:21:06.804][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:06.815][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2024-07-15 22:21:06.819][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:06.823][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:06.824][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2024-07-15 22:21:06.826][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:06.839][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2024-07-15 22:21:06.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:06.866][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-07-15 22:21:06.868][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:21:06.870][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-07-15 22:21:06.871][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:06.884][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2024-07-15 22:21:06.885][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:21:06.887][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:21:06.889][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:21:06.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:06.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:06.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:06.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:06.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:06.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:06.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:06.912][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:06.913][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:06.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.915][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:06.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:06.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.922][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:06.923][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:06.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.926][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.927][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:06.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:06.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.934][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:06.936][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:06.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.938][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.940][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:06.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:06.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.945][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:06.946][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:06.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.948][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:06.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:06.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.955][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:06.956][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:06.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.959][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.960][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:06.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:06.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.965][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:06.967][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:06.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.969][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.971][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:06.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:06.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.976][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:06.977][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.980][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.982][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:06.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:06.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.988][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:06.990][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:06.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.992][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:06.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:06.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:06.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:06.999][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:07.000][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:07.001][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.002][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.004][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:07.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:07.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.009][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:07.011][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:07.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.013][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.014][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:07.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:07.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.019][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:07.021][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:07.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.023][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.025][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:07.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:07.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:07.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:07.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:07.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:07.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:07.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:07.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.082][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-07-15 22:21:07.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:07.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.148][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.DEBUG[2024-07-15 22:21:07.150][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-07-15 22:21:07.151][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:21:07.153][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-07-15 22:21:07.156][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:07.170][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2024-07-15 22:21:07.172][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:21:07.173][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:21:07.175][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:21:07.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:07.203][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.205][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.209][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.219][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:07.222][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:07.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.225][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.228][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:07.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:07.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.236][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:07.238][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:07.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.241][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.243][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:07.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:07.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.248][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:07.249][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:07.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.251][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:07.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:07.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.258][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:07.259][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:07.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.262][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:07.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:07.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.268][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:07.270][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:07.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.272][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.274][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:07.275][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:07.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.277][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.279][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:07.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:07.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.284][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.285][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.288][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.295][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:07.297][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:07.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.300][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:07.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:07.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.309][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:07.311][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:07.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.315][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.317][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:07.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:07.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.323][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:07.325][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:07.326][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.328][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.330][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:07.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:07.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:07.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:07.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:07.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:07.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:07.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:07.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:07.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:07.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.392][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-07-15 22:21:07.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.450][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:07.455][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:07.457][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-15 22:21:07.458][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:07.461][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-15 22:21:07.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:07.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:07.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:07.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:07.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.662][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.TRACE[2024-07-15 22:21:07.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.687][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.706][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.TRACE[2024-07-15 22:21:07.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:07.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.771][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[2024-07-15 22:21:07.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:07.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:07.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:07.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.918][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:07.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:07.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:07.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:07.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:07.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:07.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:07.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:07.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:07.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:07.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:07.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:07.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:08.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:08.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:08.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:08.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:08.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:08.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:08.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:08.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:08.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:08.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:08.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:08.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:08.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:08.057][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.TRACE[2024-07-15 22:21:08.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:08.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:08.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:08.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:08.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:08.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:08.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:08.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:08.093][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:08.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:08.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:08.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:08.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:08.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:08.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:08.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:08.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:08.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:08.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:08.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:08.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:08.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:08.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:08.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:08.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:08.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:08.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:08.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:08.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:08.184][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.TRACE[2024-07-15 22:21:08.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:08.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:08.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:08.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:08.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:08.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:08.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:08.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:08.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:08.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:08.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:08.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:08.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:08.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:08.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:08.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:08.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:08.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:08.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:08.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:08.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:08.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:08.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:08.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:08.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:08.316][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.INFO [2024-07-15 22:21:08.320][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2024-07-15 22:21:08.322][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:08.323][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:08.326][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:21:08.888][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:21:09.390][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:09.394][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-07-15 22:21:09.400][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-07-15 22:21:09.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:09.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:09.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:09.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:09.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:09.442][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:09.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:09.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:09.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:09.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:09.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:09.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:09.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:09.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:09.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:09.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:09.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:09.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:09.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:09.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:09.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:09.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:09.525][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.TRACE[2024-07-15 22:21:09.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:09.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:09.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:09.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:09.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:09.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:09.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:09.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:09.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:09.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:09.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:09.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:09.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:09.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:09.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:09.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:09.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:09.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:09.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:09.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:09.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:09.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:09.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:09.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:09.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:09.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:09.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:09.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:09.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:09.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:09.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:09.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:09.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:09.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:09.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:09.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:09.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:09.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:09.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:09.767][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[2024-07-15 22:21:09.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:09.783][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:09.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:09.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:09.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:09.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:09.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:09.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:09.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:09.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:09.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:09.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:09.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:09.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:09.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:09.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:09.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:09.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:09.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:09.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:09.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:09.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:09.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:09.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:09.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:09.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:09.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:09.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:09.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:09.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:09.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:09.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:09.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:09.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:09.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:09.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:09.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:09.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:09.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:09.951][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.TRACE[2024-07-15 22:21:09.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:09.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:09.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:09.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:09.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:09.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:09.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:09.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:09.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:09.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:09.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:09.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:10.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:10.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:10.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:10.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:10.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:10.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:10.025][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.TRACE[2024-07-15 22:21:10.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:10.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:10.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:10.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:10.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:10.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:10.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:10.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:10.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:10.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:10.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:10.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:10.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:10.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:10.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:10.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:10.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:10.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:10.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:10.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:10.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:10.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:10.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:10.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:10.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:10.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:10.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:10.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:10.150][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:10.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:10.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:10.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:10.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:10.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:10.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:10.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:10.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:10.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:10.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:10.242][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[2024-07-15 22:21:10.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:10.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.308][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-15 22:21:10.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-15 22:21:10.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-15 22:21:10.336][biodb::testThat]
biodb.INFO [2024-07-15 22:21:10.338][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-07-15 22:21:10.340][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:21:10.342][biodb::testThat]
biodb.TRACE[2024-07-15 22:21:10.348][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-15 22:21:10.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-15 22:21:10.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:10.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:10.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:10.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:10.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:10.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:10.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:10.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:10.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:10.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:10.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:10.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:10.397][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:10.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:10.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:10.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:10.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:10.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:10.437][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:10.444][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:10.446][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:10.450][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:21:10.822][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:21:11.196][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:11.199][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-07-15 22:21:11.205][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-07-15 22:21:11.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:11.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:11.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:11.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:11.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:11.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:11.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:11.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:11.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:11.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:11.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:11.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:11.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:11.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:11.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:11.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:11.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:11.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:11.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:11.269][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:11.275][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:11.278][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:11.281][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:21:11.650][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:21:12.017][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:12.020][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-07-15 22:21:12.026][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-07-15 22:21:12.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:12.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:12.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:12.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:12.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:12.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:12.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:12.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:12.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:12.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:12.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:12.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:12.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:12.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:12.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:12.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:12.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:12.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:12.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:12.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:12.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:12.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:12.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:12.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:12.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:12.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:12.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:12.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:12.106][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-15 22:21:12.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:12.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:12.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:12.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:12.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:12.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:12.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:12.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.146][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:12.147][private$selectFields]
biodb.TRACE[2024-07-15 22:21:12.149][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:12.151][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:12.153][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:12.155][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.157][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.161][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.163][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.165][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.169][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.170][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:12.173][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:12.174][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.177][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.180][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.182][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:12.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.222][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-15 22:21:12.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:12.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:12.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:12.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:12.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:12.243][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:12.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:12.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.262][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:12.264][private$selectFields]
biodb.TRACE[2024-07-15 22:21:12.266][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:12.268][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:12.269][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:12.271][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.274][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.277][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.279][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.281][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.285][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.287][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:12.289][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:12.291][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.293][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.297][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.299][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:12.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.326][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-15 22:21:12.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:12.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:12.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:12.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:12.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:12.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:12.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:12.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.369][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:12.371][private$selectFields]
biodb.TRACE[2024-07-15 22:21:12.373][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:12.375][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:12.377][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:12.379][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.381][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.383][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.385][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.387][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.389][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.393][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.395][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:12.397][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:12.399][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.400][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.402][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.404][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:12.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:12.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.421][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-15 22:21:12.422][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-15 22:21:12.423][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-15 22:21:12.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:12.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:12.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:12.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:12.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:12.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:12.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:12.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:12.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:12.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:12.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:12.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:12.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:12.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:12.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:12.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:12.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:12.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:12.536][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.INFO [2024-07-15 22:21:12.540][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2024-07-15 22:21:12.542][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:12.543][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:12.546][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:21:12.905][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:21:13.278][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:13.281][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2024-07-15 22:21:13.287][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2024-07-15 22:21:13.302][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:13.306][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:13.307][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:13.309][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:21:13.681][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:21:14.045][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:14.050][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2024-07-15 22:21:14.058][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2024-07-15 22:21:14.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:14.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:14.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:14.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:14.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:14.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:14.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:14.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:14.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:14.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:14.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:14.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:14.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:14.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:14.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:14.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:14.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:14.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:14.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:14.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:14.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:14.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:14.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:14.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:14.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:14.237][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-15 22:21:14.265][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:14.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:14.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:14.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:14.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:14.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:14.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:14.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.394][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:14.396][private$selectFields]
biodb.TRACE[2024-07-15 22:21:14.398][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:14.400][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:14.402][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:14.404][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.406][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.410][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.412][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.414][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.418][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.420][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:14.422][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:14.424][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.426][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.430][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.432][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:14.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.459][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-15 22:21:14.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:14.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:14.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:14.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:14.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:14.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:14.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:14.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.555][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:14.557][private$selectFields]
biodb.TRACE[2024-07-15 22:21:14.559][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:14.562][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:14.564][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:14.566][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.568][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.572][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.574][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.576][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.580][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.582][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:14.594][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:14.596][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.599][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.603][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.606][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:14.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.637][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-15 22:21:14.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:14.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:14.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:14.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:14.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:14.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:14.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:14.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.663][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:14.664][private$selectFields]
biodb.TRACE[2024-07-15 22:21:14.665][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:14.666][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:14.668][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:14.669][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.670][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.672][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.674][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.675][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.677][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.678][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:14.680][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:14.681][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.682][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.685][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.686][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:14.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:14.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.703][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-15 22:21:14.704][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-15 22:21:14.705][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-15 22:21:14.723][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-15 22:21:14.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-15 22:21:14.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-15 22:21:14.734][biodb::testThat]
biodb.INFO [2024-07-15 22:21:14.735][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-07-15 22:21:14.737][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:21:14.738][biodb::testThat]
biodb.TRACE[2024-07-15 22:21:14.742][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-15 22:21:14.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-15 22:21:14.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:14.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:14.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:14.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:14.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:14.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:14.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:14.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:14.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:14.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:14.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:14.783][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:14.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:14.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:14.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:14.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:14.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:14.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:14.814][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:14.818][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:14.819][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:14.821][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:21:15.184][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:21:15.543][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:15.548][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-07-15 22:21:15.556][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-07-15 22:21:15.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:15.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:15.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:15.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:15.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:15.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:15.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:15.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:15.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:15.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:15.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:15.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:15.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:15.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:15.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:15.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:15.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:15.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:15.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:15.618][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:15.625][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:15.627][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:15.631][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:21:16.004][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:21:16.376][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:16.381][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-07-15 22:21:16.388][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-07-15 22:21:16.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:16.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:16.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:16.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:16.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:16.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:16.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:16.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:16.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:16.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:16.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:16.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:16.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:16.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:16.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:16.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:16.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:16.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:16.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:16.469][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:16.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:16.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:16.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:16.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:16.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:16.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:16.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:16.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:16.497][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-15 22:21:16.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:16.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:16.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:16.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:16.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:16.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:16.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:16.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.531][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:16.533][private$selectFields]
biodb.TRACE[2024-07-15 22:21:16.535][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:16.537][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:16.539][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:16.541][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.544][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.548][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.550][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.552][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.556][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.558][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:16.560][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:16.562][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.564][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.568][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.570][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:16.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.595][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-15 22:21:16.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:16.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:16.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:16.616][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:16.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:16.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:16.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:16.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.641][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:16.643][private$selectFields]
biodb.TRACE[2024-07-15 22:21:16.645][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:16.647][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:16.649][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:16.651][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.653][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.656][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.657][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.658][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.661][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.662][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:16.663][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:16.665][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.666][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.668][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.670][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:16.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.691][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-15 22:21:16.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:16.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:16.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:16.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:16.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:16.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:16.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:16.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.739][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:16.741][private$selectFields]
biodb.TRACE[2024-07-15 22:21:16.743][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:16.754][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:16.759][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:16.761][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.764][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.768][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.770][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.772][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.775][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.777][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:16.780][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:16.781][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.784][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.787][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.789][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:16.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:16.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.815][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-15 22:21:16.816][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-15 22:21:16.819][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-15 22:21:16.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:16.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:16.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:16.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:16.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:16.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:16.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:16.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:16.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:16.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:16.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:16.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:16.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:16.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:16.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:16.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:16.907][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:16.913][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:16.915][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-07-15 22:21:16.918][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:16.921][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-07-15 22:21:16.927][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:16.932][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:16.934][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-07-15 22:21:16.936][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:16.939][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-07-15 22:21:16.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:16.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:16.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:16.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:16.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:16.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:16.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:16.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:16.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:16.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:16.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:16.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:16.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:16.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:16.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:16.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:16.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:16.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:16.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:16.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:16.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:16.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:17.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:17.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:17.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:17.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:17.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:17.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:17.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:17.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:17.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:17.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:17.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:17.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:17.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:17.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:17.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:17.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:17.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:17.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:17.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:17.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:17.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:17.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:17.109][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-15 22:21:17.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:17.113][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:17.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:17.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:17.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:17.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:17.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:17.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.155][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.157][private$selectFields]
biodb.TRACE[2024-07-15 22:21:17.159][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:17.160][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:17.162][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.164][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.166][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.170][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.172][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.174][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.178][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.180][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.182][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.184][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.186][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.190][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.192][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:17.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.218][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-15 22:21:17.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:17.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:17.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:17.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:17.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:17.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:17.242][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[2024-07-15 22:21:17.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.258][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.260][private$selectFields]
biodb.TRACE[2024-07-15 22:21:17.262][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:17.263][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:17.264][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.266][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.267][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.271][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.275][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.279][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.281][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.283][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.285][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.287][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.290][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.292][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:17.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.311][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-15 22:21:17.313][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:17.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:17.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:17.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:17.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:17.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:17.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:17.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.347][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.349][private$selectFields]
biodb.TRACE[2024-07-15 22:21:17.351][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:17.352][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:17.353][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.354][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.356][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.358][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.359][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.361][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.364][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.365][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.366][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.368][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.369][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.371][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.373][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:17.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.390][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-15 22:21:17.391][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-15 22:21:17.392][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-15 22:21:17.410][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-15 22:21:17.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-15 22:21:17.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-15 22:21:17.432][biodb::testThat]
biodb.INFO [2024-07-15 22:21:17.433][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-07-15 22:21:17.435][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:21:17.436][biodb::testThat]
biodb.TRACE[2024-07-15 22:21:17.440][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-15 22:21:17.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-15 22:21:17.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:17.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:17.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:17.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:17.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:17.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:17.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:17.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:17.526][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:17.532][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:17.535][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-15 22:21:17.536][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:17.539][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-15 22:21:17.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:17.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:17.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:17.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:17.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:17.563][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:17.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:17.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.573][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:17.587][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:17.593][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:17.596][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-15 22:21:17.599][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:17.602][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-15 22:21:17.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:17.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:17.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:17.629][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:17.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:17.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:17.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:17.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:17.653][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:17.654][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:17.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:17.673][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:17.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:17.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:17.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:17.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:17.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:17.706][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-15 22:21:17.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:17.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:17.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:17.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:17.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:17.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:17.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:17.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.749][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.751][private$selectFields]
biodb.TRACE[2024-07-15 22:21:17.753][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:17.755][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:17.757][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.759][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.761][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.765][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.767][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.769][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.773][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.775][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.777][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.779][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.781][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.783][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.785][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:17.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.804][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-15 22:21:17.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:17.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:17.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:17.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:17.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:17.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:17.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:17.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.843][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.844][private$selectFields]
biodb.TRACE[2024-07-15 22:21:17.845][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:17.846][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:17.848][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.850][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.853][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.856][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.858][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.860][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.863][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.865][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.866][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.867][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.868][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.871][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.872][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:17.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.896][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-15 22:21:17.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:17.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:17.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:17.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:17.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:17.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:17.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:17.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.933][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.935][private$selectFields]
biodb.TRACE[2024-07-15 22:21:17.936][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:17.937][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:17.938][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.940][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.941][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.942][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.943][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.945][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.946][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.948][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.950][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.951][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:17.952][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.953][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.956][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.957][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:17.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:17.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:17.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:17.974][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-15 22:21:17.975][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-15 22:21:17.976][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-15 22:21:18.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:18.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:18.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:18.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:18.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:18.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:18.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:18.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:18.080][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:18.085][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:18.087][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-07-15 22:21:18.089][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:18.091][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-07-15 22:21:18.095][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:18.100][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:18.102][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-07-15 22:21:18.105][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:18.108][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-07-15 22:21:18.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:18.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:18.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:18.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:18.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:18.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:18.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:18.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:18.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:18.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:18.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:18.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:18.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:18.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:18.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:18.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:18.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:18.212][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:18.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:18.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:18.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:18.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:18.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:18.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:18.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:18.244][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-15 22:21:18.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:18.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:18.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:18.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:18.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:18.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:18.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:18.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.279][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:18.281][private$selectFields]
biodb.TRACE[2024-07-15 22:21:18.283][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:18.285][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:18.287][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:18.289][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.291][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.294][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.296][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.298][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.302][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.304][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:18.306][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:18.308][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.310][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.314][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.316][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:18.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.342][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-15 22:21:18.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:18.346][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:18.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:18.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:18.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:18.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:18.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:18.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.384][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:18.386][private$selectFields]
biodb.TRACE[2024-07-15 22:21:18.388][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:18.390][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:18.392][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:18.394][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.396][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.401][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.403][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.405][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.409][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.412][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:18.414][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:18.416][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.418][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.423][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.425][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:18.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.451][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-15 22:21:18.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:18.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:18.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:18.462][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:18.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:18.464][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:18.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:18.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.477][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:18.479][private$selectFields]
biodb.TRACE[2024-07-15 22:21:18.480][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:21:18.481][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:21:18.482][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:18.483][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.485][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.487][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.488][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.490][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.492][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.493][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:18.495][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:21:18.496][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.497][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.499][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.501][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:21:18.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:18.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:18.518][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-15 22:21:18.519][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-15 22:21:18.520][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-15 22:21:18.580][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-15 22:21:18.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-15 22:21:18.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:18.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-15 22:21:18.598][biodb::testThat]
biodb.INFO [2024-07-15 22:21:18.599][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-07-15 22:21:18.600][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:21:18.602][biodb::testThat]
biodb.DEBUG[2024-07-15 22:21:18.604][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-07-15 22:21:18.605][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:21:18.608][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-07-15 22:21:18.609][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:21:18.611][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:21:18.612][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:21:18.614][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:21:18.615][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:21:18.616][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:21:18.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:18.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:18.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:18.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:18.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:18.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:18.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:18.641][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2024-07-15 22:21:18.646][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:18.647][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:18.649][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2024-07-15 22:21:19.241][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2024-07-15 22:21:19.617][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:19.620][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2024-07-15 22:21:19.626][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2024-07-15 22:21:19.631][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2024-07-15 22:21:19.633][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:21:19.635][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:21:19.637][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:21:19.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:19.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:19.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:19.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:19.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:19.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:19.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:19.669][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:19.670][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:19.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.672][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:19.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:19.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.679][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:19.680][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:19.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.683][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.684][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:19.686][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:19.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.688][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.690][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:19.691][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:19.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.693][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.695][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:19.696][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:19.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.698][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.700][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:19.701][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:19.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.704][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.705][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:19.707][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:19.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.709][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.710][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:19.712][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:19.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.714][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.716][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:19.717][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:19.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.719][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.721][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:19.722][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:19.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.725][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.726][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:19.727][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:19.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.730][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:19.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:19.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:19.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:19.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:19.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:19.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:19.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:19.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:19.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:19.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:19.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:19.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:19.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:19.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:19.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:19.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:19.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:19.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:19.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:19.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:19.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:19.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:19.789][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2024-07-15 22:21:19.790][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-07-15 22:21:19.808][biodb::testThat]
biodb.INFO [2024-07-15 22:21:19.810][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-07-15 22:21:19.811][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:21:19.813][biodb::testThat]
biodb.DEBUG[2024-07-15 22:21:19.849][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2024-07-15 22:21:19.851][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2024-07-15 22:21:19.852][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-07-15 22:21:19.854][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2024-07-15 22:21:19.856][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2024-07-15 22:21:19.857][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:21:19.859][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:21:19.860][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:21:19.862][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:21:19.863][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:21:19.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:19.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:19.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:19.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:19.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:19.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:19.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:19.890][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2024-07-15 22:21:19.893][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:19.895][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:19.896][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2024-07-15 22:21:20.258][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2024-07-15 22:21:20.635][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:20.638][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2024-07-15 22:21:20.643][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2024-07-15 22:21:20.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:20.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:20.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:20.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:20.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:20.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:20.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:20.665][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2024-07-15 22:21:20.670][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:20.672][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:20.674][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2024-07-15 22:21:21.040][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2024-07-15 22:21:21.435][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:21.438][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2024-07-15 22:21:21.443][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2024-07-15 22:21:21.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:21.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:21.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:21.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:21.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:21.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:21.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:21.588][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2024-07-15 22:21:21.591][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:21.592][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:21.594][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2024-07-15 22:21:21.968][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2024-07-15 22:21:22.343][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:22.346][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2024-07-15 22:21:22.351][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2024-07-15 22:21:22.355][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2024-07-15 22:21:22.360][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:21:22.362][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-07-15 22:21:22.363][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-07-15 22:21:22.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:22.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:22.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:22.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:22.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:22.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:22.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:22.383][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.384][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.385][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.386][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.393][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:22.395][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:22.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.397][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.399][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:22.400][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:22.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.404][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.406][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:22.407][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:22.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.411][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.412][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:22.414][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:22.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.416][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.418][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:22.419][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:22.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.421][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.423][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:22.424][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:22.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.427][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.428][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:22.430][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:22.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.432][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.433][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:22.435][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:22.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.437][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.439][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:22.441][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:22.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.443][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.445][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:22.446][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:22.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.448][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:22.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:22.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:22.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:22.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:22.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:22.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:22.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:22.511][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.512][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.514][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.521][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:22.523][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:22.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.526][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.527][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:22.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:22.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.533][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:22.534][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:22.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.536][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.538][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:22.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:22.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.543][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:22.545][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:22.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.547][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.549][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:22.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:22.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.554][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:22.555][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:22.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.557][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.559][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:22.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:22.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.564][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:22.565][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:22.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.568][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.569][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:22.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:22.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.575][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:22.576][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:22.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.578][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.580][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:22.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:22.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.585][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:22.587][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:22.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.589][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:22.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:22.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.596][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:22.597][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:22.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.600][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.603][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:22.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:22.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.611][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:22.613][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:22.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.617][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.620][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:22.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:22.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.628][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:22.630][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:22.632][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.634][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.636][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:22.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:22.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:22.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:22.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:22.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:22.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:22.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:22.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:22.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:22.735][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.736][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.738][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.745][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:22.746][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:22.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.749][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.751][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:22.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:22.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.757][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:22.758][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:22.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.761][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.763][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:22.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:22.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.769][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:22.770][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:22.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.773][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:22.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:22.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.779][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:22.781][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:22.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.783][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:22.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:22.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.790][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:22.791][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:22.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.794][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.795][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:22.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:22.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.800][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:22.802][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:22.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.804][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.805][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:22.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:22.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.811][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:22.812][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:22.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.814][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:22.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:22.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.821][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:22.822][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:22.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.825][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.826][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:22.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:22.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.832][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:22.833][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:22.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.836][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.837][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:22.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:22.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.842][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:22.844][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:22.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.846][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.847][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:22.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:22.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:22.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:22.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:22.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:22.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:22.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:22.933][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2024-07-15 22:21:22.934][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-07-15 22:21:22.935][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2024-07-15 22:21:22.986][biodb::testThat]
biodb.INFO [2024-07-15 22:21:22.988][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-07-15 22:21:22.989][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:21:22.991][biodb::testThat]
biodb.INFO [2024-07-15 22:21:23.030][biodb::testThat]
biodb.INFO [2024-07-15 22:21:23.031][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-07-15 22:21:23.032][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:21:23.033][biodb::testThat]
biodb.INFO [2024-07-15 22:21:23.048][biodb::testThat]
biodb.INFO [2024-07-15 22:21:23.049][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-07-15 22:21:23.052][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:21:23.054][biodb::testThat]
biodb.DEBUG[2024-07-15 22:21:23.059][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:23.063][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:23.064][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:23.067][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:21:23.489][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:21:23.996][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:23.999][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2024-07-15 22:21:24.005][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2024-07-15 22:21:24.030][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:24.031][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:24.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:24.034][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:24.036][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:24.038][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:24.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:24.040][ef$get] fields variable is a list.
biodb.INFO [2024-07-15 22:21:24.043][biodb::testThat]
biodb.INFO [2024-07-15 22:21:24.044][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2024-07-15 22:21:24.045][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:21:24.046][biodb::testThat]
biodb.ERROR[2024-07-15 22:21:24.070][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2024-07-15 22:21:24.098][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2024-07-15 22:21:24.114][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-15 22:21:24.116][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-15 22:21:24.118][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-15 22:21:24.119][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-15 22:21:24.120][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:24.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:24.123][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.125][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-15 22:21:24.167][biodb::testContext]
biodb.INFO [2024-07-15 22:21:24.168][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:21:24.170][biodb::testContext] Test context - Test conversions
biodb.INFO [2024-07-15 22:21:24.172][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:21:24.174][biodb::testContext]
biodb.INFO [2024-07-15 22:21:24.177][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:21:24.180][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-15 22:21:24.189][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:21:24.191][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-15 22:21:24.193][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-15 22:21:24.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.200][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-15 22:21:24.202][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-15 22:21:24.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.207][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-15 22:21:24.209][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-15 22:21:24.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.214][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-15 22:21:24.215][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-15 22:21:24.216][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-15 22:21:24.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.221][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-15 22:21:24.222][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-15 22:21:24.224][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-15 22:21:24.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.228][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-15 22:21:24.230][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-15 22:21:24.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.235][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-15 22:21:24.236][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-15 22:21:24.238][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-15 22:21:24.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.242][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-15 22:21:24.244][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-15 22:21:24.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.250][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-15 22:21:24.251][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-15 22:21:24.252][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-15 22:21:24.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.257][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:21:24.258][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-15 22:21:24.259][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-15 22:21:24.261][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-15 22:21:24.262][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-15 22:21:24.263][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-15 22:21:24.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.267][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.DEBUG[2024-07-15 22:21:24.268][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-15 22:21:24.269][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-15 22:21:24.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.274][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-15 22:21:24.276][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-15 22:21:24.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.280][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-15 22:21:24.282][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-15 22:21:24.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.286][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-15 22:21:24.288][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-15 22:21:24.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.293][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-15 22:21:24.294][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-15 22:21:24.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.299][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:21:24.300][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-15 22:21:24.304][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-15 22:21:24.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.309][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-15 22:21:24.311][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-15 22:21:24.313][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-15 22:21:24.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.321][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-15 22:21:24.323][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:24.324][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-15 22:21:24.325][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.327][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:24.328][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.329][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:24.331][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:24.332][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:21:24.333][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:21:24.334][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:24.336][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.337][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-15 22:21:24.338][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:24.339][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:24.341][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.342][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:21:24.342][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:21:24.342][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:21:24.342][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:21:24.342][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:21:24.343][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:21:24.345][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:24.346][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:24.347][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:24.348][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:24.349][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:24.351][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:24.353][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:24.355][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:24.357][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:24.359][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:24.361][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:24.363][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-15 22:21:24.367][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:24.369][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:21:24.371][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.373][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:24.375][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.377][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:24.379][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:24.381][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:21:24.383][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:21:24.385][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:24.387][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.389][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-15 22:21:24.391][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:24.393][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:24.395][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.397][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:21:24.397][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:21:24.397][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:21:24.397][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:21:24.397][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:21:24.399][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:21:24.401][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:24.403][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:24.405][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:24.406][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:24.408][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:24.410][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:24.412][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:24.414][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:24.416][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:24.418][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:24.419][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:24.422][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-15 22:21:24.425][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.427][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-15 22:21:24.429][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.431][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:24.433][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.435][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:24.437][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:24.438][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:21:24.440][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:21:24.441][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:24.442][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:24.444][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-15 22:21:24.445][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:24.446][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:24.447][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.449][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:24.450][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:21:24.451][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:24.452][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:24.453][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:24.455][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:24.456][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:24.457][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:24.458][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:24.460][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:24.461][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:24.462][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:24.463][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:24.465][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-15 22:21:24.467][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.468][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:21:24.469][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.470][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:24.472][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.473][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:24.474][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:24.476][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:21:24.478][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:21:24.480][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:24.482][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:24.484][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-15 22:21:24.486][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:24.488][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:24.490][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:24.492][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:24.494][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:21:24.496][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:24.498][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:24.500][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:24.502][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:24.504][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:24.505][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:24.507][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:24.509][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:24.511][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:24.513][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:24.515][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:24.517][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:21:24.519][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.619][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[2024-07-15 22:21:24.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.674][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-15 22:21:24.677][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-15 22:21:24.679][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-15 22:21:24.682][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-15 22:21:24.685][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:21:24.687][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-15 22:21:24.690][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-15 22:21:24.692][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-15 22:21:24.695][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-15 22:21:24.698][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-15 22:21:24.700][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:21:24.703][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-15 22:21:24.706][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-15 22:21:24.708][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-15 22:21:24.711][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-15 22:21:24.714][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-15 22:21:24.717][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-15 22:21:24.720][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-15 22:21:24.723][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:21:24.726][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-15 22:21:24.727][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-15 22:21:24.729][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-15 22:21:24.731][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-15 22:21:24.732][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-15 22:21:24.741][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-15 22:21:24.742][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-15 22:21:24.744][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-15 22:21:24.746][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-15 22:21:24.747][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-15 22:21:24.749][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-15 22:21:24.751][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-15 22:21:24.752][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-15 22:21:24.754][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-15 22:21:24.756][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-15 22:21:24.757][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-15 22:21:24.759][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-15 22:21:24.760][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-15 22:21:24.762][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-15 22:21:24.764][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-15 22:21:24.765][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-15 22:21:24.767][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-15 22:21:24.768][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-15 22:21:24.770][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-15 22:21:24.772][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-15 22:21:24.773][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-15 22:21:24.775][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-15 22:21:24.777][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-15 22:21:24.778][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-15 22:21:24.780][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-15 22:21:24.781][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-15 22:21:24.783][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-15 22:21:24.785][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-15 22:21:24.786][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-15 22:21:24.788][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-15 22:21:24.789][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-15 22:21:24.791][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-15 22:21:24.792][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-15 22:21:24.794][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-15 22:21:24.796][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-15 22:21:24.797][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-15 22:21:24.799][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-15 22:21:24.800][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-15 22:21:24.802][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-15 22:21:24.804][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-15 22:21:24.805][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-15 22:21:24.807][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-15 22:21:24.808][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:21:24.810][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:21:24.812][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-15 22:21:24.813][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-15 22:21:24.815][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-15 22:21:24.816][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-15 22:21:24.818][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-15 22:21:24.820][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-15 22:21:24.821][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-15 22:21:24.823][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-15 22:21:24.824][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-15 22:21:24.826][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-15 22:21:24.828][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-15 22:21:24.829][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-15 22:21:24.831][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-15 22:21:24.832][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-15 22:21:24.834][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-15 22:21:24.836][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-15 22:21:24.838][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:21:24.839][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:21:24.841][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.843][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.844][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[2024-07-15 22:21:24.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:24.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:24.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:24.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:24.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:24.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:24.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:24.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:24.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:24.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:24.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:24.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:24.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:24.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:24.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:24.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:24.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:24.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:24.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:24.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:24.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:24.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:24.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:24.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:25.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:25.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:25.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:25.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:25.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:25.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:25.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:25.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:25.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:25.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:25.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:25.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:25.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:25.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:25.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:25.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:25.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:25.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:25.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:25.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:25.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:25.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:25.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:25.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:25.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:25.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:25.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:25.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:25.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:25.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:25.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:25.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:25.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:25.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:25.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:25.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:25.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:25.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:25.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:25.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:25.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:25.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:25.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:25.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:25.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:25.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:25.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:25.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:25.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:25.509][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.DEBUG[2024-07-15 22:21:25.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:25.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:25.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:25.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:25.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:25.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:25.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:25.543][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-15 22:21:25.554][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-15 22:21:25.557][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:25.558][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-15 22:21:25.560][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:25.561][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:25.562][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:25.563][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:25.564][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:25.566][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-15 22:21:25.567][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-15 22:21:25.568][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:25.570][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:25.572][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-15 22:21:25.574][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:25.576][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-15 22:21:25.576][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-15 22:21:25.576][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-15 22:21:25.576][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-15 22:21:25.576][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-15 22:21:25.576][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-15 22:21:25.576][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-15 22:21:25.576][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-15 22:21:25.576][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-15 22:21:25.576][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-15 22:21:25.576][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-15 22:21:25.578][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:25.580][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:21:25.580][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:21:25.580][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:21:25.581][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-15 22:21:25.582][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:25.583][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:25.584][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:25.586][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:25.587][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:25.588][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:25.589][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:21:25.589][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-15 22:21:25.590][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:25.592][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:25.593][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:25.594][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-15 22:21:25.594][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-15 22:21:25.596][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:21:25.598][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:21:25.599][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-15 22:21:25.601][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:21:25.603][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:21:25.605][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:21:25.609][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-15 22:21:25.610][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-15 22:21:25.611][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-15 22:21:25.613][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-15 22:21:25.615][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:21:25.616][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:21:25.618][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-15 22:21:25.619][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-15 22:21:25.621][biodb::testThat]
biodb.INFO [2024-07-15 22:21:25.622][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2024-07-15 22:21:25.623][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:21:25.624][biodb::testThat]
biodb.DEBUG[2024-07-15 22:21:25.629][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-15 22:21:25.634][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:25.635][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:25.637][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2024-07-15 22:21:25.990][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2024-07-15 22:21:26.443][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:26.446][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2024-07-15 22:21:26.451][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2024-07-15 22:21:26.457][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:26.461][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:26.462][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:26.464][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:21:26.833][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:21:27.196][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:27.199][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2024-07-15 22:21:27.205][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2024-07-15 22:21:27.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:27.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:27.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:27.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:27.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:27.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:27.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:27.231][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:27.235][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:27.236][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:27.238][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:21:27.603][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:21:27.985][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:27.989][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2024-07-15 22:21:27.996][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2024-07-15 22:21:28.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:28.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:28.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:28.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:28.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:28.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:28.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:28.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:28.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:28.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:28.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:28.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:28.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:28.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:28.072][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:28.076][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:28.078][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-07-15 22:21:28.080][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:28.082][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-07-15 22:21:28.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:28.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:28.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:28.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:28.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:28.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:28.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:28.103][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:28.107][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:28.109][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-07-15 22:21:28.110][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:28.113][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-07-15 22:21:28.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:28.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:28.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:28.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:28.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:28.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:28.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:28.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:28.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:28.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:28.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:28.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:28.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:28.149][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[2024-07-15 22:21:28.153][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:28.157][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:28.158][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-07-15 22:21:28.160][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:28.162][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-07-15 22:21:28.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:28.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:28.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:28.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:28.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:28.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:28.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:28.180][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:28.184][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:28.185][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-07-15 22:21:28.187][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:28.189][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-07-15 22:21:28.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:28.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:28.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:28.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:28.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:28.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:28.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:28.214][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:28.218][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:28.219][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:28.221][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:21:28.607][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:21:28.966][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:28.969][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2024-07-15 22:21:28.975][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2024-07-15 22:21:28.978][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:28.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:28.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:29.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:29.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:29.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:29.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-15 22:21:29.021][biodb::testThat]
biodb.INFO [2024-07-15 22:21:29.022][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2024-07-15 22:21:29.024][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:21:29.025][biodb::testThat]
biodb.DEBUG[2024-07-15 22:21:29.029][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:29.033][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:29.034][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:29.036][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:21:29.411][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:21:29.776][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:29.779][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2024-07-15 22:21:29.785][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2024-07-15 22:21:29.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:29.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:29.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:29.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:29.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:29.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:29.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:29.837][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:29.843][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:29.845][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:29.849][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:21:30.222][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:21:30.588][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:30.591][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2024-07-15 22:21:30.597][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2024-07-15 22:21:30.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:30.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:30.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:30.616][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:30.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:30.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-15 22:21:30.639][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-15 22:21:30.642][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-15 22:21:30.644][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-15 22:21:30.646][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-15 22:21:30.648][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:30.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:30.652][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:30.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:30.655][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-15 22:21:30.676][biodb::testContext]
biodb.INFO [2024-07-15 22:21:30.678][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:21:30.680][biodb::testContext] Test context - Test web services
biodb.INFO [2024-07-15 22:21:30.682][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:21:30.683][biodb::testContext]
biodb.INFO [2024-07-15 22:21:30.687][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:21:30.690][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-15 22:21:30.696][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:21:30.697][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-15 22:21:30.699][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-15 22:21:30.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.704][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-15 22:21:30.705][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-15 22:21:30.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.711][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-15 22:21:30.712][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-15 22:21:30.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.718][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-15 22:21:30.720][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-15 22:21:30.721][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-15 22:21:30.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.727][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-15 22:21:30.729][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-15 22:21:30.731][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-15 22:21:30.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.737][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-15 22:21:30.739][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-15 22:21:30.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.746][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-15 22:21:30.748][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-15 22:21:30.750][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-15 22:21:30.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.757][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-15 22:21:30.759][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-15 22:21:30.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.764][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[2024-07-15 22:21:30.766][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-15 22:21:30.768][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-15 22:21:30.770][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-15 22:21:30.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.777][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:21:30.778][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-15 22:21:30.780][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-15 22:21:30.782][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-15 22:21:30.784][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-15 22:21:30.786][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-15 22:21:30.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.793][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-15 22:21:30.795][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-15 22:21:30.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.802][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-15 22:21:30.804][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-15 22:21:30.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.810][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-15 22:21:30.811][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-15 22:21:30.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.819][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-15 22:21:30.821][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-15 22:21:30.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.829][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-15 22:21:30.831][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-15 22:21:30.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.838][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:21:30.840][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-15 22:21:30.846][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-15 22:21:30.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.852][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-15 22:21:30.853][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-15 22:21:30.855][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-15 22:21:30.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:30.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:30.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:30.863][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-15 22:21:30.866][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:30.868][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-15 22:21:30.870][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:30.872][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:30.874][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:30.876][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:30.878][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:30.880][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:21:30.882][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:21:30.884][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:30.886][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:30.888][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-15 22:21:30.890][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:30.902][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:30.907][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:30.909][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:21:30.909][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:21:30.909][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:21:30.909][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:21:30.909][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:21:30.910][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:21:30.911][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:30.912][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:30.913][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:30.915][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:30.916][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:30.917][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:30.918][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:30.919][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:30.921][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:30.922][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:30.923][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:30.924][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-15 22:21:30.926][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:30.928][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:21:30.929][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:30.930][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:30.931][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:30.933][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:30.934][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:30.936][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:21:30.937][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:21:30.939][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:30.940][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:30.941][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-15 22:21:30.942][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:30.944][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:30.945][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:30.947][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:21:30.947][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:21:30.947][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:21:30.947][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:21:30.947][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:21:30.949][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:21:30.951][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:30.953][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:30.955][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:30.957][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:30.959][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:30.961][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:30.963][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:30.964][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:30.965][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:30.966][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:30.968][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:30.969][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-15 22:21:30.971][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:30.972][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-15 22:21:30.973][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:30.975][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:30.976][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:30.978][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:30.979][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:30.980][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:21:30.982][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:21:30.984][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:30.985][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:30.986][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-15 22:21:30.988][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:30.989][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:30.991][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:30.992][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:30.993][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:21:30.995][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:30.996][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:30.997][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:30.999][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:31.001][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:31.002][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:31.004][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:31.006][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:31.008][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:31.010][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:31.013][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:31.015][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-15 22:21:31.018][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:31.020][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:21:31.022][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:31.024][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:31.025][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:31.026][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:31.028][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:31.029][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:21:31.030][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:21:31.031][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:31.032][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:31.034][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-15 22:21:31.035][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:31.036][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:31.037][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:31.039][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:31.040][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:21:31.041][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:31.042][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:31.044][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:31.045][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:31.046][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:31.047][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:31.048][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:31.050][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:31.051][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:31.052][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:31.053][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:31.055][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:21:31.056][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.057][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[2024-07-15 22:21:31.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.160][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-15 22:21:31.163][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-15 22:21:31.165][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-15 22:21:31.168][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-15 22:21:31.171][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:21:31.174][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-15 22:21:31.176][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-15 22:21:31.179][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-15 22:21:31.182][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-15 22:21:31.184][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-15 22:21:31.187][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:21:31.190][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-15 22:21:31.192][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-15 22:21:31.195][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-15 22:21:31.198][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-15 22:21:31.201][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-15 22:21:31.203][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-15 22:21:31.206][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-15 22:21:31.209][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:21:31.212][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-15 22:21:31.214][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-15 22:21:31.217][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-15 22:21:31.220][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-15 22:21:31.223][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-15 22:21:31.225][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-15 22:21:31.228][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-15 22:21:31.231][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-15 22:21:31.233][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-15 22:21:31.236][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-15 22:21:31.239][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-15 22:21:31.241][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-15 22:21:31.244][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-15 22:21:31.247][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-15 22:21:31.249][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-15 22:21:31.252][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-15 22:21:31.255][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-15 22:21:31.257][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-15 22:21:31.260][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-15 22:21:31.263][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-15 22:21:31.265][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-15 22:21:31.268][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-15 22:21:31.271][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-15 22:21:31.273][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-15 22:21:31.276][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-15 22:21:31.278][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-15 22:21:31.281][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-15 22:21:31.283][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-15 22:21:31.286][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-15 22:21:31.289][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-15 22:21:31.291][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-15 22:21:31.294][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-15 22:21:31.296][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-15 22:21:31.299][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-15 22:21:31.302][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-15 22:21:31.304][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-15 22:21:31.307][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-15 22:21:31.310][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-15 22:21:31.312][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-15 22:21:31.315][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-15 22:21:31.317][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-15 22:21:31.320][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-15 22:21:31.323][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-15 22:21:31.325][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-15 22:21:31.328][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-15 22:21:31.331][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-15 22:21:31.333][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-15 22:21:31.336][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:21:31.339][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:21:31.342][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-15 22:21:31.344][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-15 22:21:31.347][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-15 22:21:31.350][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-15 22:21:31.352][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-15 22:21:31.355][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-15 22:21:31.358][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-15 22:21:31.360][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-15 22:21:31.363][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-15 22:21:31.366][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-15 22:21:31.368][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-15 22:21:31.371][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-15 22:21:31.374][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-15 22:21:31.376][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-15 22:21:31.379][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-15 22:21:31.382][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-15 22:21:31.386][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:21:31.388][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:21:31.390][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.394][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.509][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.DEBUG[2024-07-15 22:21:31.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.534][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[2024-07-15 22:21:31.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.547][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.DEBUG[2024-07-15 22:21:31.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:31.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:31.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:31.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:31.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:31.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:31.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:31.626][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-15 22:21:31.629][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-15 22:21:31.633][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:31.635][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-15 22:21:31.637][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:31.639][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:31.641][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:31.643][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:31.645][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:31.647][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-15 22:21:31.649][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-15 22:21:31.651][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:31.653][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:31.655][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-15 22:21:31.657][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:31.659][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-15 22:21:31.659][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-15 22:21:31.659][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-15 22:21:31.659][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-15 22:21:31.659][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-15 22:21:31.659][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-15 22:21:31.659][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-15 22:21:31.659][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-15 22:21:31.659][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-15 22:21:31.659][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-15 22:21:31.659][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-15 22:21:31.661][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:31.663][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:21:31.663][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:21:31.663][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:21:31.665][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-15 22:21:31.667][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:31.669][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:31.671][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:31.673][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:31.675][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:31.677][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:31.679][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:21:31.679][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-15 22:21:31.681][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:31.683][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:31.685][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:31.687][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-15 22:21:31.687][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-15 22:21:31.689][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:21:31.692][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:21:31.695][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-15 22:21:31.698][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:21:31.701][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:21:31.704][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:21:31.710][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-15 22:21:31.712][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-15 22:21:31.714][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-15 22:21:31.718][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-15 22:21:31.720][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:21:31.722][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:21:31.725][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-15 22:21:31.727][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-15 22:21:31.730][biodb::testThat]
biodb.INFO [2024-07-15 22:21:31.732][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2024-07-15 22:21:31.734][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:21:31.736][biodb::testThat]
biodb.DEBUG[2024-07-15 22:21:31.742][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-15 22:21:31.748][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:31.750][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-07-15 22:21:31.753][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:31.756][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-07-15 22:21:31.763][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:31.769][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:31.772][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:31.774][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:21:32.140][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:21:32.511][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:32.514][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2024-07-15 22:21:32.519][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2024-07-15 22:21:32.555][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-15 22:21:32.557][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-15 22:21:32.559][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-15 22:21:32.561][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-15 22:21:32.563][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:32.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:32.567][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:32.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:32.571][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-15 22:21:32.592][biodb::testContext]
biodb.INFO [2024-07-15 22:21:32.594][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:21:32.595][biodb::testContext] Test context - Non regression tests
biodb.INFO [2024-07-15 22:21:32.597][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:21:32.599][biodb::testContext]
biodb.INFO [2024-07-15 22:21:32.602][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:21:32.605][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-15 22:21:32.611][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:21:32.613][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-15 22:21:32.614][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-15 22:21:32.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.619][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-15 22:21:32.620][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-15 22:21:32.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.625][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-15 22:21:32.627][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-15 22:21:32.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.631][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-15 22:21:32.633][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-15 22:21:32.634][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-15 22:21:32.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.639][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-15 22:21:32.640][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-15 22:21:32.642][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-15 22:21:32.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.646][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-15 22:21:32.648][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-15 22:21:32.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.653][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-15 22:21:32.654][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-15 22:21:32.655][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-15 22:21:32.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.660][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-15 22:21:32.661][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-15 22:21:32.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.666][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-15 22:21:32.667][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-15 22:21:32.669][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-15 22:21:32.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.674][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:21:32.675][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-15 22:21:32.676][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-15 22:21:32.678][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-15 22:21:32.681][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-15 22:21:32.683][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-15 22:21:32.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.691][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-15 22:21:32.693][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-15 22:21:32.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.698][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-15 22:21:32.700][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-15 22:21:32.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.704][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-15 22:21:32.706][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-15 22:21:32.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.710][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-15 22:21:32.712][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-15 22:21:32.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.716][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-15 22:21:32.718][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-15 22:21:32.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.722][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:21:32.724][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-15 22:21:32.727][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-15 22:21:32.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.732][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-15 22:21:32.733][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-15 22:21:32.734][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-15 22:21:32.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.739][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-15 22:21:32.741][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:32.743][self$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[2024-07-15 22:21:32.744][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.745][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:32.747][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.749][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:32.751][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:32.753][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:21:32.755][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:21:32.757][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:32.760][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.762][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-15 22:21:32.764][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:32.766][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:32.768][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.770][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:21:32.770][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:21:32.770][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:21:32.770][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:21:32.770][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:21:32.772][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:21:32.774][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:32.776][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:32.778][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:32.780][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:32.782][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:32.784][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:32.786][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:32.788][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:32.790][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:32.792][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:32.794][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:32.797][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-15 22:21:32.800][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:32.802][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:21:32.804][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.806][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:32.809][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.811][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:32.813][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:32.815][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:21:32.817][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:21:32.819][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:32.821][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.823][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-15 22:21:32.837][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:32.839][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:32.841][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.843][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:21:32.843][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:21:32.843][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:21:32.843][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:21:32.843][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:21:32.846][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:21:32.848][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:32.849][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:32.851][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:32.853][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:32.855][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:32.857][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:32.859][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:32.861][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:32.863][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:32.865][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:32.867][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:32.869][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-15 22:21:32.872][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.874][self$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[2024-07-15 22:21:32.876][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.878][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:32.880][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.882][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:32.884][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:32.886][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:21:32.889][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:21:32.891][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:32.893][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:32.895][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-15 22:21:32.897][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:32.898][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:32.900][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.901][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:32.902][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:21:32.903][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:32.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:32.907][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:32.909][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:32.911][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:32.912][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:32.914][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:32.916][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:32.918][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:32.920][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:32.922][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:32.924][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-15 22:21:32.927][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.929][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:21:32.932][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.933][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:32.935][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.937][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:32.939][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:32.941][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:21:32.943][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:21:32.945][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:32.947][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:32.949][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-15 22:21:32.951][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:32.953][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:32.955][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:32.957][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:32.959][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:21:32.961][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:32.963][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:32.965][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:32.967][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:32.969][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:32.971][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:32.973][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:32.975][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:32.976][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:32.978][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:32.980][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:21:32.983][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:21:32.984][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:32.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:32.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:32.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:32.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:32.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.042][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[2024-07-15 22:21:33.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.145][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-15 22:21:33.147][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-15 22:21:33.150][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-15 22:21:33.153][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-15 22:21:33.156][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:21:33.159][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-15 22:21:33.162][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-15 22:21:33.165][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-15 22:21:33.168][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-15 22:21:33.170][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-15 22:21:33.173][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:21:33.174][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-15 22:21:33.176][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-15 22:21:33.178][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-15 22:21:33.180][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-15 22:21:33.182][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-15 22:21:33.184][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-15 22:21:33.186][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-15 22:21:33.187][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:21:33.189][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-15 22:21:33.191][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-15 22:21:33.192][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-15 22:21:33.194][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-15 22:21:33.196][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-15 22:21:33.198][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-15 22:21:33.200][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-15 22:21:33.203][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-15 22:21:33.206][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-15 22:21:33.209][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-15 22:21:33.212][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-15 22:21:33.214][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-15 22:21:33.217][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-15 22:21:33.220][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-15 22:21:33.222][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-15 22:21:33.224][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-15 22:21:33.226][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-15 22:21:33.228][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-15 22:21:33.231][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-15 22:21:33.233][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-15 22:21:33.236][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-15 22:21:33.239][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-15 22:21:33.242][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-15 22:21:33.244][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-15 22:21:33.247][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-15 22:21:33.250][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-15 22:21:33.252][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-15 22:21:33.255][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-15 22:21:33.258][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-15 22:21:33.261][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-15 22:21:33.263][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-15 22:21:33.266][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-15 22:21:33.269][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-15 22:21:33.271][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-15 22:21:33.274][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-15 22:21:33.277][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-15 22:21:33.280][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-15 22:21:33.282][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-15 22:21:33.285][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-15 22:21:33.288][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-15 22:21:33.290][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-15 22:21:33.293][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-15 22:21:33.296][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-15 22:21:33.299][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-15 22:21:33.301][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-15 22:21:33.304][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-15 22:21:33.307][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-15 22:21:33.310][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:21:33.312][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:21:33.315][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-15 22:21:33.318][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-15 22:21:33.321][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-15 22:21:33.323][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-15 22:21:33.326][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-15 22:21:33.329][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-15 22:21:33.332][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-15 22:21:33.334][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-15 22:21:33.337][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-15 22:21:33.340][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-15 22:21:33.343][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-15 22:21:33.345][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-15 22:21:33.348][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-15 22:21:33.351][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-15 22:21:33.354][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-15 22:21:33.356][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-15 22:21:33.360][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:21:33.363][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:21:33.364][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.368][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.532][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.DEBUG[2024-07-15 22:21:33.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:21:33.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.600][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-15 22:21:33.603][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-15 22:21:33.605][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:33.606][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-15 22:21:33.607][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:33.609][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:21:33.610][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:33.611][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:21:33.613][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:33.614][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-15 22:21:33.615][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-15 22:21:33.617][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:21:33.618][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:33.619][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-15 22:21:33.621][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:21:33.622][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-15 22:21:33.622][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-15 22:21:33.622][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-15 22:21:33.622][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-15 22:21:33.622][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-15 22:21:33.622][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-15 22:21:33.622][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-15 22:21:33.622][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-15 22:21:33.622][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-15 22:21:33.622][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-15 22:21:33.622][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-15 22:21:33.623][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-15 22:21:33.625][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:21:33.625][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:21:33.625][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:21:33.626][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-15 22:21:33.627][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:33.628][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:33.630][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:21:33.631][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:21:33.632][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:21:33.633][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:21:33.634][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:21:33.634][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-15 22:21:33.636][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:21:33.637][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:21:33.638][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-15 22:21:33.639][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-15 22:21:33.639][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-15 22:21:33.641][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:21:33.643][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:21:33.645][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-15 22:21:33.647][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:21:33.648][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:21:33.650][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:21:33.655][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-15 22:21:33.657][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-15 22:21:33.658][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-15 22:21:33.661][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-15 22:21:33.662][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:21:33.663][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:21:33.665][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-15 22:21:33.667][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-15 22:21:33.669][biodb::testThat]
biodb.INFO [2024-07-15 22:21:33.671][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2024-07-15 22:21:33.672][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:21:33.673][biodb::testThat]
biodb.DEBUG[2024-07-15 22:21:33.677][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-15 22:21:33.682][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:33.684][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-07-15 22:21:33.686][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:33.689][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-07-15 22:21:33.693][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:21:33.697][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:21:33.699][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-07-15 22:21:33.700][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:21:33.703][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2024-07-15 22:21:33.708][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2024-07-15 22:21:33.710][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:21:33.712][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2024-07-15 22:21:33.714][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:21:33.715][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:21:33.717][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:21:33.719][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:21:33.720][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:21:33.721][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:21:33.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:33.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:33.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:33.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:33.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:33.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:33.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:21:33.750][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2024-07-15 22:21:33.755][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:21:33.757][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:21:33.759][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2024-07-15 22:21:34.149][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2024-07-15 22:21:34.996][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:21:34.999][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2024-07-15 22:21:35.008][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2024-07-15 22:21:35.013][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2024-07-15 22:21:35.017][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:21:35.019][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:21:35.021][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:21:35.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:21:35.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:35.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:35.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:35.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:35.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:35.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:21:35.047][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:35.048][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:35.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.051][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:35.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:35.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.061][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:35.063][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:35.065][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.067][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.069][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:21:35.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:21:35.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.074][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:35.076][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:35.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.079][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.082][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:21:35.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:21:35.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.090][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:21:35.092][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:21:35.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.094][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.096][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:21:35.098][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:21:35.099][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.100][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.102][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:35.103][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:35.104][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.106][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.107][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:35.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:21:35.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.115][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:35.117][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:35.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.121][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.124][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:21:35.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:21:35.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.132][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:35.134][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:35.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.138][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:35.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:21:35.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.149][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:35.151][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:35.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.155][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.158][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:21:35.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:21:35.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.166][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:35.169][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:35.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.172][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.174][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:21:35.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:21:35.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.179][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:35.181][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:35.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.183][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.185][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:21:35.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:21:35.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:35.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:35.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:35.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:35.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:35.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:35.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:21:35.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:21:35.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:35.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:35.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:35.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:35.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:35.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:35.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:35.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:35.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:35.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:35.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:21:35.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:21:35.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:21:35.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:21:35.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:21:35.243][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2024-07-15 22:21:35.286][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-15 22:21:35.288][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-15 22:21:35.289][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-15 22:21:35.291][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-15 22:21:35.292][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:21:35.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:21:35.294][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:21:35.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:21:35.297][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:21:35.298][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 377 ]
> 
> proc.time()
   user  system elapsed 
  25.21    1.82  134.43

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn 5.43 2.9879.37
ChebiEntry1.140.021.23